Plasma_PrecipitationFASTA_file00Tandem_param_file00pellet_directory00spectral_library00raw_directory00supernatant_directory00Venn_diagramhistogramscompare_resultsraw_input0pellet_input0supernatant_input0FASTA_file0histograms00Venn_diagram00 This embedded workflow calculates the molecular weight, isoelectric point and GRAVY score for each protein in the FASTA file and matches it with the protein identifications from the preceeding embedded workflows. An Rshell generates a Venn diagram for the identified peptides in the different fractions and histograms of protein spectral counts as function of the calculated protein properties. 2012-07-31 15:22:24.678 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeanalyze_rawFASTA_file0Tandem_param_file0spectral_library0mzXML_file0InterProphet_filename00 The analyze_raw subworkflow identifies proteins by SpectraST spectral library search and X!Tandem database search, validates the results using PeptideProphet and combines them with InterProphet. The PeptideProphet probability cut-off is specified the PeptideProphet tools, here 0.95. This probability cut-off typically gives a global false discovery rate around 1%. 2012-07-31 15:27:15.774 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeanalyze_pelletTandem_param_file0spectral_library0FASTA_file0mzXML_file0InterProphet_filename00 The analyze_pellet subworkflow identifies proteins by SpectraST spectral library search and X!Tandem database search, validates the results using PeptideProphet and combines them with InterProphet. The PeptideProphet probability cut-off is specified the PeptideProphet tools, here 0.95. This probability cut-off typically gives a global false discovery rate around 1%. 2012-07-31 15:27:32.685 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeanalyze_supernatantspectral_library0Tandem_param_file0FASTA_file0mzXML_file0InterProphet_filename00 The analyze_supernatant subworkflow identifies proteins by SpectraST spectral library search and X!Tandem database search, validates the results using PeptideProphet and combines them with InterProphet. The PeptideProphet probability cut-off is specified the PeptideProphet tools, here 0.95. This probability cut-off typically gives a global false discovery rate around 1%. 2012-07-31 15:27:58.134 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCompassXport_rawinput_directory0mzXML_file00 This embedded component converts liquid chromatography-tandem mass spectrometry data in the Bruker instrument format to the open mzXML format. This component should be replaced for data from other vendors. 2012-07-31 15:31:02.268 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCompassXport_pelletinput_directory0mzXML_file00 This embedded component converts liquid chromatography-tandem mass spectrometry data in the Bruker instrument format to the open mzXML format. This component should be replaced for data from other vendors. 2012-07-31 15:31:06.325 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCompassXport_supernatantinput_directory0mzXML_file00 This embedded component converts liquid chromatography-tandem mass spectrometry data in the Bruker instrument format to the open mzXML format. This component should be replaced for data from other vendors. 2012-07-31 15:31:10.308 UTC net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecompare_resultsraw_inputanalyze_rawInterProphet_filenamecompare_resultspellet_inputanalyze_pelletInterProphet_filenamecompare_resultssupernatant_inputanalyze_supernatantInterProphet_filenamecompare_resultsFASTA_fileFASTA_fileanalyze_rawFASTA_fileFASTA_fileanalyze_rawTandem_param_fileTandem_param_fileanalyze_rawspectral_libraryspectral_libraryanalyze_rawmzXML_fileCompassXport_rawmzXML_fileanalyze_pelletTandem_param_fileTandem_param_fileanalyze_pelletspectral_libraryspectral_libraryanalyze_pelletFASTA_fileFASTA_fileanalyze_pelletmzXML_fileCompassXport_pelletmzXML_fileanalyze_supernatantspectral_libraryspectral_libraryanalyze_supernatantTandem_param_fileTandem_param_fileanalyze_supernatantFASTA_fileFASTA_fileanalyze_supernatantmzXML_fileCompassXport_supernatantmzXML_fileCompassXport_rawinput_directoryraw_directoryCompassXport_pelletinput_directorypellet_directoryCompassXport_supernatantinput_directorysupernatant_directoryVenn_diagramcompare_resultsVenn_diagramhistogramscompare_resultshistograms 9134e0e6-97b8-4979-a472-db07f9dfe266 2012-06-08 17:05:45.563 UTC ee9f7336-b275-4993-a082-01b44d017dd5 2012-07-30 15:53:04.902 UTC 950c81fd-ff6e-4a95-a582-630f73bda932 2012-07-31 15:06:41.295 UTC 2cee4108-c994-4c8d-83cc-0eeb2efb6616 2012-07-31 12:19:40.623 UTC 43e50a67-15d2-4203-9c87-de35985778aa 2012-07-27 14:30:35.144 UTC 046e6f6f-b872-4ead-beb0-1e74dd3e2c43 2012-07-30 09:37:39.204 UTC f0d120ae-9b19-4e0c-98b4-d39e7a3f7953 2012-07-30 09:01:22.185 UTC Plasma Precipitation Analysis V0.9 2012-07-31 14:57:28.925 UTC ce08df7f-5cc0-4844-b58c-a25ca32ac962 2012-07-30 13:39:52.610 UTC 5b9062b7-c561-4c93-855b-1468eed22f2f 2012-07-31 15:27:16.411 UTC 94313bf6-5ab7-4426-86c2-990f9f74e497 2012-06-29 13:13:41.489 UTC 07003c98-dcf5-4666-914c-adcc9a560fc2 2012-07-31 09:51:20.6 UTC 4a55d0e9-7d9b-4fc3-9ea0-d9ce0a6e885f 2012-07-31 15:22:25.367 UTC cd4bcc62-16d9-4bf3-9389-b60ba7ee2a03 2012-06-29 13:15:38.704 UTC adaceaf1-1566-4dc9-b3aa-2c1a77f0583d 2012-06-29 13:09:03.857 UTC 5ea9200f-858b-48cd-9382-c7356345001c 2012-06-08 15:50:49.331 UTC 43c76e85-cc9c-4acb-b2de-3923b916b1f4 2012-07-31 14:21:42.595 UTC 74a5a397-340d-458b-bc2e-80e1dfeb6743 2012-07-31 15:31:12.494 UTC e628c020-3ec8-4edc-b97d-443d9fed2fc2 2012-06-08 15:45:29.971 UTC 014c6cc7-2212-4367-ad68-822e0c38bbd5 2012-07-31 15:37:49.977 UTC b7f555c1-3d82-4f55-a7c6-c061b4d1c1d4 2012-07-27 14:07:20.226 UTC 7953d56f-c01d-439a-a574-b054ecb4439c 2012-06-29 12:52:39.937 UTC ABOUT THE WORKFLOW This workflow was used to analyze the data in a manuscript by Mostovenko et al. (2012, submitted), comparing proteins in the precipitate with those left in solution after organic solvent precipitation. However, the workflow is generally applicable in comparisons of any binary fractionation method in proteomics, where the fractions are analyzed by liquid chromatography-tandem mass spectrometry. The workflow identifies proteins by SpectraST spectral library search and X!Tandem database search, validates the results using PeptideProphet and combines them with InterProphet. The proteins are quantified by spectral counting and the fractions compared with respect to protein molecular weight, isoelectric point and GRAVY hydrophobicity score. In the end, an Rshell script produces the figures as presented in the manuscript. Executing the workflow requires Rserve running and the Trans-Proteomic Pipeline (http://tools.proteomecenter.org/wiki/index.php?title=Software:TPP) installed with default settings and in the default location. The Rshell script contains the location where the figures will be generated. All other output files are stored in the input data folders by default. The version of X!Tandem called from this workflow is separate from the one installed with the Trans-Proteomic Pipeline (the location specified in the Tandem components). COPYRIGHT NOTICE This workflow is based on open software and the workflow itself is shared under the Creative Commons Attribution-ShareAlike 3.0 Unported License (CC BY-SA) (see http://creativecommons.org/licenses/by-sa/3.0/) Copyright© 2012 Ekaterina Mostovenko, Jeroen de Bruin, Yassene Mohammed and Magnus Palmblad 2012-07-31 16:02:32.800 UTC e3ba3cd5-3be9-48de-a990-f87f6d54d963 2012-07-31 14:50:36.605 UTC 062f45ed-235f-4cdc-9418-587d96cad2bb 2012-07-27 15:27:21.358 UTC dc54b70b-8297-4eae-981b-1e131a7dfd74 2012-07-31 16:02:32.991 UTC Ekaterina Mostovenko (e.mostovenko@lumc.nl) Jeroen de Bruin Yassene Mohammed Magnus Palmblad (n.m.palmblad@lumc.nl) 2012-07-31 14:50:01.258 UTC 51ede26a-4466-4201-9992-4450990241db 2012-07-31 14:46:46.411 UTC e2b0bba8-814e-40a5-9fe5-118f9d52d5b3 2012-07-27 14:37:41.609 UTC 55347871-3722-4cb9-9961-06a8cb9cd494 2012-07-27 15:47:20.719 UTC 6e9720d8-898b-48a5-a4f8-cf7fe4b25bc2 2012-07-27 14:17:08.332 UTC Workflow39input_directory00mzXML_fileCompassXportinput_directory0mzXML_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity input_directory 0 text/plain java.lang.String true mzXML_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeCompassXportinput_directoryinput_directorymzXML_fileCompassXportmzXML_file f46c7767-32be-4981-a430-f1aa790ba7c3 2011-04-12 15:21:20.243 UTC 1e6e3390-b67e-401b-9891-37a7611791aa 2011-03-31 15:52:21.216 UTC a476eb7b-fc48-4ae3-ad55-9a74c5cbfbb5 2011-04-06 14:44:50.867 UTC 90f4b6da-2ed0-4faa-b614-58e19578c85c 2011-04-06 14:49:31.619 UTC aa83b945-468f-4df0-8483-b737e942dd5c 2012-07-27 14:25:43.769 UTC Workflow1FASTA_file00mzXML_file00Tandem_param_file00spectral_library00Tandem_filenameSpectraST_filenameTandem2XMLin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 1c8bfa82-c0b9-43a2-91cb-f3829e17524d C:\Inetpub\tpp-bin\Tandem2XML.exe "%%in1%%" "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_filenametandem_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-31 12:18:39.653 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_Tandemin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraSTmzxml_file0library_splib_file0parameters0output_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity library_splib_file 0 text/plain java.lang.String true mzxml_file 0 text/plain java.lang.String true parameters 0 text/plain java.lang.String true output_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparametersvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity -sTAA -sCCAM -sA! -s_HOM4 -sR! net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_SpectraSTin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_SpectraST_filenamespectrast_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity spectrast_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-06-11 09:38:48.288 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandemfasta_file0mzxml_file0parameter_file0tandem_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity mzxml_file 0 text/plain java.lang.String true fasta_file 0 text/plain java.lang.String true parameter_file 0 text/plain java.lang.String true tandem_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_pepXML_filenametandem_filename0pepXML_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true pepXML_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-31 12:18:04.239 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandem2XMLin1Tandemtandem_filegenerate_Tandem_filenametandem_filenameTandemtandem_filePeptideProphet_Tandemin1generate_Tandem_pepXML_filenamepepXML_filenameSpectraSTmzxml_filemzXML_fileSpectraSTlibrary_splib_filespectral_librarySpectraSTparametersparametersvaluePeptideProphet_SpectraSTin1SpectraSToutput_filegenerate_SpectraST_filenamespectrast_filenameSpectraSToutput_fileTandemfasta_fileFASTA_fileTandemmzxml_filemzXML_fileTandemparameter_fileTandem_param_filegenerate_Tandem_pepXML_filenametandem_filenameTandemtandem_fileTandem_filenamegenerate_Tandem_filenameinteract_filenameSpectraST_filenamegenerate_SpectraST_filenameinteract_filename bab1140e-733d-4de8-b462-d630be2049b7 2012-06-07 16:42:23.973 UTC eef566f9-79ad-43ad-9f09-bdf3ba2b308c 2012-02-21 14:21:57.453 UTC dab6549f-672b-4b4d-8482-70483637f7bf 2012-06-07 17:10:40.548 UTC 7f7c6977-8634-446c-9e28-b2bbe9c0d435 2011-04-12 14:37:50.373 UTC 26e3310c-558b-484d-9bf8-dbd94bdab7d9 2011-04-06 16:18:09.939 UTC 45d1674a-08d8-46da-8c83-01d62ac6a2da 2011-01-14 16:22:58.378 UTC 2f2a554f-7e88-41bd-9f20-54c94e706bff 2012-06-08 13:40:11.213 UTC 1ca3f6fe-ff28-4b00-ab70-9e33aee57f88 2012-06-07 17:37:05.63 UTC d53e0466-3b98-4922-a83a-8e42e4082200 2012-06-07 17:27:37.982 UTC b9c68ff8-76f2-4726-a7a2-aec8f92efc19 2012-06-08 15:43:07.437 UTC 3989acab-88ec-4744-ad54-41ab932adf5a 2012-06-07 17:07:35.938 UTC 15e8bbb1-5e24-4a95-8669-dcb2d2bd872e 2012-07-31 12:19:09.98 UTC 3b217286-b6ff-46b8-ada6-e85a30c336fd 2012-06-11 11:30:00.926 UTC 0c63e3d2-612d-403e-b86f-0562818e948d 2012-06-07 17:05:48.560 UTC 4db4a7b9-a993-4ece-a634-9595d94ded82 2012-06-07 17:32:54.422 UTC 37ee026a-1003-4d94-804f-b8dfb6c5b1cf 2012-06-11 09:19:19.938 UTC 53dedd63-ed91-4471-9f04-e865704e95d3 2012-06-07 16:38:49.753 UTC 19f9afea-461d-42a4-9e3c-b1beff044faa 2012-01-02 11:01:38.855 UTC 0a640cb0-85c0-476f-b968-66854439f28c 2012-06-11 09:44:55.230 UTC 49be1d97-bd5f-435c-92c8-284a6badda1f 2012-06-07 13:42:50.176 UTC 61400c60-e1f7-41d4-8c21-bfd12371c16b 2012-06-08 14:52:09.464 UTC 4a7d22ab-d891-44c7-95e8-94eec173bfb1 2012-06-07 17:35:58.462 UTC 8e857b78-8720-4419-986b-91b50f428f7a 2012-06-07 17:33:34.800 UTC 3ea33be4-1c29-41d2-a7e9-c595e350f043 2012-06-08 13:48:34.478 UTC bb0978fb-bb46-44f0-8595-78c4101eecda 2012-06-07 17:25:28.429 UTC 14f795cd-a6ab-445c-9026-a5d6589fce2e 2012-06-08 14:06:02.687 UTC 2ef4b150-c4c3-4723-bb94-13354855488f 2012-06-08 19:31:08.496 UTC fa0cf99c-15b5-4312-a025-e9b607210cdd 2012-06-07 17:04:56.856 UTC 6c0b38cd-c89b-45d8-be50-8230e81c27e8 2012-06-08 13:46:51.676 UTC fecc8412-b94b-4aa3-8e49-120f5833de64 2011-04-12 14:39:16.474 UTC 91d9e752-52c9-4a56-8646-2669e2f4c210 2012-07-27 13:48:05.107 UTC 7ee7024a-c68f-4d58-a440-b2e90133cb77 2012-06-08 15:23:28.334 UTC c649a808-b49c-4cbd-8cfe-fa9f3ada6ab0 2012-06-07 16:35:20.401 UTC 1646f54e-f7fb-4bf3-9012-a0974562f13a 2012-06-07 17:14:49.311 UTC 7a668ae6-8ce8-4c61-bf67-5828ee27f5a0 2012-06-08 14:36:25.117 UTC 7e1de6d3-d34b-477e-9c7c-4aa05504fb93 2012-07-27 13:59:13.870 UTC 6f68c5e2-efc6-45e1-ab95-5d47022afb03 2011-01-14 15:44:26.34 UTC 3b4f7ad2-695a-4b8e-992e-184f2686a654 2012-06-08 14:28:55.642 UTC 4f560972-1edb-4771-bfe7-76d6baad98e5 2012-06-07 17:22:17.250 UTC 7a113d2d-2dde-4411-a575-35442bb2b385 2012-06-11 12:37:09.112 UTC fee5a046-8e03-42f0-b3b8-2d2b7201ae1f 2012-06-07 17:24:55.816 UTC 870543f5-a513-49e3-9964-fe355f8eff8a 2012-06-08 19:32:47.128 UTC d261f4e9-c674-452b-98f8-02d9a66da506 2012-07-27 15:27:13.760 UTC 5462707a-879b-4444-bc3b-baa83a8a94db 2012-06-07 16:56:17.971 UTC b82bd131-139e-4072-b2eb-8e358f3b80ef 2011-12-01 12:05:51.521 UTC 19f72c62-ed1a-4c8f-bb6e-01fb1bd800b5 2011-04-07 14:38:29.321 UTC 0aaa9cfd-beef-4080-8c4c-8bf07b19c8ad 2012-06-08 14:25:59.621 UTC 1f1a2e96-0005-4f99-a952-0b258fc05574 2012-06-07 16:47:34.139 UTC 5eb26cc0-93f6-4f24-b304-3b9a43db5976 2012-07-27 15:47:12.531 UTC 93418c27-60c9-469a-8c3a-08ecb19f8606 2012-06-08 13:40:17.284 UTC 6455080e-1cd3-4536-8801-b1b4518defaa 2012-07-27 14:36:26.376 UTC 90706fef-2caa-42aa-8bc1-248cab3e6a94 2012-06-08 15:15:54.852 UTC 39a5ba2f-fb81-4bd0-aec0-e7558b19411b 2012-06-07 16:52:52.948 UTC bc702e4d-e1d7-44e9-869d-675892d96ff6 2012-06-12 08:40:58.508 UTC e0298812-2dd2-4d05-b415-2e32cd4d8036 2012-06-08 12:50:54.134 UTC 34b7fea4-4cf7-4dc4-b6f9-7f3c955af477 2011-12-01 12:04:42.550 UTC 7d412680-e983-4b32-a309-1f8306b9f576 2012-06-08 14:10:21.667 UTC eb2a5ac6-dda2-4b48-8d7c-58c36f9502f7 2011-04-12 14:35:36.741 UTC d47a341b-2046-43b1-87f1-1f0c97748198 2011-01-31 10:01:17.418 UTC dc1dbd33-5f24-4046-8743-e5d118f1d7dd 2012-06-07 15:52:13.282 UTC dd7955fd-0cde-444a-84e9-003bba99d9f7 2012-06-08 14:32:28.149 UTC e5d118e3-2916-4365-ae29-4984d3e1b4f6 2011-01-14 15:49:18.610 UTC 3b745b6b-b340-43b0-bff5-fbd2fc3a00bb 2012-06-08 14:04:21.679 UTC 4d019938-0342-4bdd-a387-615d80eb22ab 2012-06-07 17:12:49.239 UTC ca6f4368-c04c-4aa9-9bce-7dd623c71fbc 2012-06-07 16:54:16.160 UTC 90cdc6b0-abd6-4ef2-b16b-12bb7337d544 2012-06-07 17:26:52.201 UTC 95d3d712-26db-45c8-8ee9-285240f230c4 2012-06-07 17:23:08.204 UTC 5af074ed-bd32-44e0-a45e-5458b7767fd5 2012-06-07 16:06:22.883 UTC ea9bb0fd-35d6-45af-8773-506a8bcadc24 2011-03-02 14:12:29.703 UTC 9e8a1638-208c-45ec-be18-9e21599f2124 2012-06-08 14:20:47.852 UTC 3106a37e-c8c7-4a97-88ec-f1213785dbe4 2012-06-07 16:49:31.387 UTC 1455895c-87d2-4d2b-9eba-0b32ac20045e 2012-06-07 17:30:43.763 UTC 0dcaaec2-6041-4933-8b39-bf6b7493702e 2012-06-07 17:06:33.899 UTC c262b57d-df04-4186-bd92-03a7f8151eac 2012-06-08 14:14:43.909 UTC fa97d580-99cd-4469-bec6-a5c3546fbaeb 2012-06-08 14:10:39.77 UTC dcfe6737-31a5-4cad-8b6b-b4fa91d260b0 2012-06-08 14:25:35.207 UTC 23b08ec0-6c7b-4bbd-a796-7233d2a93c7a 2011-03-01 10:42:27.896 UTC 396de493-2817-4b27-b550-f28aa4d3eba4 2012-06-08 14:27:24.12 UTC e5fa5551-84b5-4cae-be10-8bbc6ae85402 2011-03-30 08:58:44.949 UTC 8dead0c2-0045-4582-8942-8bbfa68a57d6 2012-06-08 15:40:18.808 UTC d5b83e42-c712-44b7-aad2-1da3431dddaa 2012-06-07 17:13:41.502 UTC b6422fb3-a2bc-48b2-a151-f26f83e1f1b0 2012-06-07 17:18:03.782 UTC 1d0c68b2-4914-4bc0-a96e-4aa36b91b28f 2012-06-11 09:59:11.821 UTC Workflow24spectral_library00mzXML_file00FASTA_file00Tandem_param_file00InterProphet_filenameSpectraST_Tandemspectral_library0mzXML_file0FASTA_file0Tandem_param_file0SpectraST_filename00Tandem_filename00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterProphetin10in20net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 69cf65c8-5828-4959-bbf2-c160e0272668 C:\Inetpub\tpp-bin\InterProphetParser.exe "%%in1%%" "%%in2%%" "%%in1%%.iproph.pep.xml" 1200 1800 in1 in2 in2 in2 false false false windows-1252 false false false in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_InterProphet_filenametandem_filename0iproph_filename00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity tandem_filename 0 text/plain java.lang.String true iproph_filename 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraST_Tandemspectral_libraryspectral_librarySpectraST_TandemmzXML_filemzXML_fileSpectraST_TandemFASTA_fileFASTA_fileSpectraST_TandemTandem_param_fileTandem_param_fileInterProphetin1SpectraST_TandemTandem_filenameInterProphetin2SpectraST_TandemSpectraST_filenamegenerate_InterProphet_filenametandem_filenameSpectraST_TandemTandem_filenameInterProphet_filenamegenerate_InterProphet_filenameiproph_filename d50833fc-4e78-4113-a098-530cea6217c3 2012-07-31 09:49:52.826 UTC 8846365a-20ac-49c5-8a2d-548afbff4d2c 2012-07-27 14:00:29.777 UTC 97497406-d8b3-47b2-832e-3e9510d4f0e0 2012-07-27 15:46:45.25 UTC c35a2c7a-01c1-4500-a3c8-3edbb76a89cb 2012-07-31 09:51:14.460 UTC 8fda911e-fcb4-40b4-bcaf-066af92cc6de 2012-07-27 13:54:41.95 UTC 368267a7-d79b-48f9-b676-281f2e325592 2012-07-27 13:50:27.474 UTC efa3ee31-7a0d-4ede-b29c-2bc9e5e7dfbb 2012-07-27 15:26:45.384 UTC 95bf41f6-64da-4cfb-9af0-dff64edc61ef 2012-07-27 14:35:41.759 UTC 048dc984-5045-4f3e-923e-5041a4a37e0f 2012-07-30 13:39:37.882 UTC 422a2b2a-87c1-46e9-b0f5-1a50edaae2be 2012-07-27 13:48:26.774 UTC 0bf92c7e-2862-47dc-972c-669f00428418 2012-07-31 09:46:49.458 UTC 68bac270-8166-4ee3-85d9-6bb380125942 2012-07-31 14:21:23.217 UTC Workflow24spectral_library00mzXML_file00FASTA_file00Tandem_param_file00InterProphet_filenameSpectraST_Tandemspectral_library0mzXML_file0FASTA_file0Tandem_param_file0Tandem_filename00SpectraST_filename00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterProphetin20in10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 69cf65c8-5828-4959-bbf2-c160e0272668 C:\Inetpub\tpp-bin\InterProphetParser.exe "%%in1%%" "%%in2%%" "%%in1%%.iproph.pep.xml" 1200 1800 in1 in2 in2 in2 false false false windows-1252 false false false in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_InterProphet_filenametandem_filename0iproph_filename00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity tandem_filename 0 text/plain java.lang.String true iproph_filename 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraST_Tandemspectral_libraryspectral_librarySpectraST_TandemmzXML_filemzXML_fileSpectraST_TandemFASTA_fileFASTA_fileSpectraST_TandemTandem_param_fileTandem_param_fileInterProphetin2SpectraST_TandemSpectraST_filenameInterProphetin1SpectraST_TandemTandem_filenamegenerate_InterProphet_filenametandem_filenameSpectraST_TandemTandem_filenameInterProphet_filenamegenerate_InterProphet_filenameiproph_filename 31d734ac-f860-45e9-a421-43385728cdd0 2012-07-27 15:26:08.502 UTC 422a2b2a-87c1-46e9-b0f5-1a50edaae2be 2012-07-27 13:48:26.774 UTC c7badc72-42d2-46bb-9859-1ab5476e460f 2012-07-31 14:21:09.81 UTC 94285282-f965-407a-b3d2-ddc52f41d0eb 2012-07-27 14:33:58.410 UTC ff9ac248-4af9-4e53-996c-80c5bc5c6a9d 2012-07-27 15:46:14.897 UTC dad2f2d9-e980-4473-b2b5-2d53908979b9 2012-07-31 14:46:21.964 UTC bebd3036-1669-4ed5-8c57-91159bd6ccfe 2012-07-27 14:34:27.700 UTC 368267a7-d79b-48f9-b676-281f2e325592 2012-07-27 13:50:27.474 UTC 8fda911e-fcb4-40b4-bcaf-066af92cc6de 2012-07-27 13:54:41.95 UTC 8846365a-20ac-49c5-8a2d-548afbff4d2c 2012-07-27 14:00:29.777 UTC f64f6521-c6ed-4875-a17d-6174c9416ffd 2012-07-30 15:51:32.617 UTC 8c0616b7-0e55-4512-ba8d-ef6dea13e8c3 2012-07-30 09:01:14.377 UTC Workflow1FASTA_file00mzXML_file00Tandem_param_file00spectral_library00Tandem_filenameSpectraST_filenameTandem2XMLin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 1c8bfa82-c0b9-43a2-91cb-f3829e17524d C:\Inetpub\tpp-bin\Tandem2XML.exe "%%in1%%" "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_filenametandem_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-31 09:48:54.19 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_Tandemin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraSTmzxml_file0library_splib_file0parameters0output_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity library_splib_file 0 text/plain java.lang.String true mzxml_file 0 text/plain java.lang.String true parameters 0 text/plain java.lang.String true output_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparametersvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity -sTAA -sCCAM -sA! -s_HOM4 -sR! net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_SpectraSTin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_SpectraST_filenamespectrast_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity spectrast_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-06-11 09:38:48.288 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandemfasta_file0mzxml_file0parameter_file0tandem_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity mzxml_file 0 text/plain java.lang.String true fasta_file 0 text/plain java.lang.String true parameter_file 0 text/plain java.lang.String true tandem_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_pepXML_filenametandem_filename0pepXML_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true pepXML_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-31 09:48:14.857 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandem2XMLin1Tandemtandem_filegenerate_Tandem_filenametandem_filenameTandemtandem_filePeptideProphet_Tandemin1generate_Tandem_pepXML_filenamepepXML_filenameSpectraSTmzxml_filemzXML_fileSpectraSTlibrary_splib_filespectral_librarySpectraSTparametersparametersvaluePeptideProphet_SpectraSTin1SpectraSToutput_filegenerate_SpectraST_filenamespectrast_filenameSpectraSToutput_fileTandemfasta_fileFASTA_fileTandemmzxml_filemzXML_fileTandemparameter_fileTandem_param_filegenerate_Tandem_pepXML_filenametandem_filenameTandemtandem_fileTandem_filenamegenerate_Tandem_filenameinteract_filenameSpectraST_filenamegenerate_SpectraST_filenameinteract_filename 870543f5-a513-49e3-9964-fe355f8eff8a 2012-06-08 19:32:47.128 UTC 7a668ae6-8ce8-4c61-bf67-5828ee27f5a0 2012-06-08 14:36:25.117 UTC 8e857b78-8720-4419-986b-91b50f428f7a 2012-06-07 17:33:34.800 UTC 7f7c6977-8634-446c-9e28-b2bbe9c0d435 2011-04-12 14:37:50.373 UTC dc1dbd33-5f24-4046-8743-e5d118f1d7dd 2012-06-07 15:52:13.282 UTC fee5a046-8e03-42f0-b3b8-2d2b7201ae1f 2012-06-07 17:24:55.816 UTC 5462707a-879b-4444-bc3b-baa83a8a94db 2012-06-07 16:56:17.971 UTC e5d118e3-2916-4365-ae29-4984d3e1b4f6 2011-01-14 15:49:18.610 UTC 4db4a7b9-a993-4ece-a634-9595d94ded82 2012-06-07 17:32:54.422 UTC 0c63e3d2-612d-403e-b86f-0562818e948d 2012-06-07 17:05:48.560 UTC 3b217286-b6ff-46b8-ada6-e85a30c336fd 2012-06-11 11:30:00.926 UTC dcfe6737-31a5-4cad-8b6b-b4fa91d260b0 2012-06-08 14:25:35.207 UTC 396de493-2817-4b27-b550-f28aa4d3eba4 2012-06-08 14:27:24.12 UTC 61400c60-e1f7-41d4-8c21-bfd12371c16b 2012-06-08 14:52:09.464 UTC 4a7d22ab-d891-44c7-95e8-94eec173bfb1 2012-06-07 17:35:58.462 UTC 0aaa9cfd-beef-4080-8c4c-8bf07b19c8ad 2012-06-08 14:25:59.621 UTC fa0cf99c-15b5-4312-a025-e9b607210cdd 2012-06-07 17:04:56.856 UTC b82bd131-139e-4072-b2eb-8e358f3b80ef 2011-12-01 12:05:51.521 UTC 7e1de6d3-d34b-477e-9c7c-4aa05504fb93 2012-07-27 13:59:13.870 UTC 7d412680-e983-4b32-a309-1f8306b9f576 2012-06-08 14:10:21.667 UTC 3106a37e-c8c7-4a97-88ec-f1213785dbe4 2012-06-07 16:49:31.387 UTC bab1140e-733d-4de8-b462-d630be2049b7 2012-06-07 16:42:23.973 UTC 19f9afea-461d-42a4-9e3c-b1beff044faa 2012-01-02 11:01:38.855 UTC ca6f4368-c04c-4aa9-9bce-7dd623c71fbc 2012-06-07 16:54:16.160 UTC 7ee7024a-c68f-4d58-a440-b2e90133cb77 2012-06-08 15:23:28.334 UTC dd7955fd-0cde-444a-84e9-003bba99d9f7 2012-06-08 14:32:28.149 UTC c649a808-b49c-4cbd-8cfe-fa9f3ada6ab0 2012-06-07 16:35:20.401 UTC 91d9e752-52c9-4a56-8646-2669e2f4c210 2012-07-27 13:48:05.107 UTC b6422fb3-a2bc-48b2-a151-f26f83e1f1b0 2012-06-07 17:18:03.782 UTC dab6549f-672b-4b4d-8482-70483637f7bf 2012-06-07 17:10:40.548 UTC 4f560972-1edb-4771-bfe7-76d6baad98e5 2012-06-07 17:22:17.250 UTC 37ee026a-1003-4d94-804f-b8dfb6c5b1cf 2012-06-11 09:19:19.938 UTC eef566f9-79ad-43ad-9f09-bdf3ba2b308c 2012-02-21 14:21:57.453 UTC 1f1a2e96-0005-4f99-a952-0b258fc05574 2012-06-07 16:47:34.139 UTC d47a341b-2046-43b1-87f1-1f0c97748198 2011-01-31 10:01:17.418 UTC 4d019938-0342-4bdd-a387-615d80eb22ab 2012-06-07 17:12:49.239 UTC eb2a5ac6-dda2-4b48-8d7c-58c36f9502f7 2011-04-12 14:35:36.741 UTC 34b7fea4-4cf7-4dc4-b6f9-7f3c955af477 2011-12-01 12:04:42.550 UTC 3b745b6b-b340-43b0-bff5-fbd2fc3a00bb 2012-06-08 14:04:21.679 UTC bc702e4d-e1d7-44e9-869d-675892d96ff6 2012-06-12 08:40:58.508 UTC ea9bb0fd-35d6-45af-8773-506a8bcadc24 2011-03-02 14:12:29.703 UTC 0a640cb0-85c0-476f-b968-66854439f28c 2012-06-11 09:44:55.230 UTC 8dead0c2-0045-4582-8942-8bbfa68a57d6 2012-06-08 15:40:18.808 UTC 2f2a554f-7e88-41bd-9f20-54c94e706bff 2012-06-08 13:40:11.213 UTC 49be1d97-bd5f-435c-92c8-284a6badda1f 2012-06-07 13:42:50.176 UTC 90706fef-2caa-42aa-8bc1-248cab3e6a94 2012-06-08 15:15:54.852 UTC 26e3310c-558b-484d-9bf8-dbd94bdab7d9 2011-04-06 16:18:09.939 UTC 19f72c62-ed1a-4c8f-bb6e-01fb1bd800b5 2011-04-07 14:38:29.321 UTC d53e0466-3b98-4922-a83a-8e42e4082200 2012-06-07 17:27:37.982 UTC 14f795cd-a6ab-445c-9026-a5d6589fce2e 2012-06-08 14:06:02.687 UTC 2a0383aa-a098-414c-beda-4e4353d81c63 2012-07-27 14:35:14.838 UTC 23b08ec0-6c7b-4bbd-a796-7233d2a93c7a 2011-03-01 10:42:27.896 UTC 6f68c5e2-efc6-45e1-ab95-5d47022afb03 2011-01-14 15:44:26.34 UTC 39a5ba2f-fb81-4bd0-aec0-e7558b19411b 2012-06-07 16:52:52.948 UTC 45d1674a-08d8-46da-8c83-01d62ac6a2da 2011-01-14 16:22:58.378 UTC 3989acab-88ec-4744-ad54-41ab932adf5a 2012-06-07 17:07:35.938 UTC 6c0b38cd-c89b-45d8-be50-8230e81c27e8 2012-06-08 13:46:51.676 UTC b9c68ff8-76f2-4726-a7a2-aec8f92efc19 2012-06-08 15:43:07.437 UTC e0298812-2dd2-4d05-b415-2e32cd4d8036 2012-06-08 12:50:54.134 UTC 5af074ed-bd32-44e0-a45e-5458b7767fd5 2012-06-07 16:06:22.883 UTC c4967ea1-a848-43fc-9f99-c397a0a5ad1f 2012-07-27 15:26:40.544 UTC 7a113d2d-2dde-4411-a575-35442bb2b385 2012-06-11 12:37:09.112 UTC 95d3d712-26db-45c8-8ee9-285240f230c4 2012-06-07 17:23:08.204 UTC 1ca3f6fe-ff28-4b00-ab70-9e33aee57f88 2012-06-07 17:37:05.63 UTC fecc8412-b94b-4aa3-8e49-120f5833de64 2011-04-12 14:39:16.474 UTC 1455895c-87d2-4d2b-9eba-0b32ac20045e 2012-06-07 17:30:43.763 UTC 547f4444-bc1d-4885-bbfe-7c63a2130e7a 2012-07-27 15:46:41.898 UTC bb0978fb-bb46-44f0-8595-78c4101eecda 2012-06-07 17:25:28.429 UTC 90cdc6b0-abd6-4ef2-b16b-12bb7337d544 2012-06-07 17:26:52.201 UTC 3ea33be4-1c29-41d2-a7e9-c595e350f043 2012-06-08 13:48:34.478 UTC 2ef4b150-c4c3-4723-bb94-13354855488f 2012-06-08 19:31:08.496 UTC c262b57d-df04-4186-bd92-03a7f8151eac 2012-06-08 14:14:43.909 UTC 9e8a1638-208c-45ec-be18-9e21599f2124 2012-06-08 14:20:47.852 UTC 1646f54e-f7fb-4bf3-9012-a0974562f13a 2012-06-07 17:14:49.311 UTC 0dcaaec2-6041-4933-8b39-bf6b7493702e 2012-06-07 17:06:33.899 UTC fa97d580-99cd-4469-bec6-a5c3546fbaeb 2012-06-08 14:10:39.77 UTC d5b83e42-c712-44b7-aad2-1da3431dddaa 2012-06-07 17:13:41.502 UTC 93418c27-60c9-469a-8c3a-08ecb19f8606 2012-06-08 13:40:17.284 UTC 1d0c68b2-4914-4bc0-a96e-4aa36b91b28f 2012-06-11 09:59:11.821 UTC e5fa5551-84b5-4cae-be10-8bbc6ae85402 2011-03-30 08:58:44.949 UTC 53dedd63-ed91-4471-9f04-e865704e95d3 2012-06-07 16:38:49.753 UTC 3b4f7ad2-695a-4b8e-992e-184f2686a654 2012-06-08 14:28:55.642 UTC 134f74a9-64a4-4a6f-9cda-4ea02f620234 2012-07-31 09:49:38.352 UTC Workflow24spectral_library00mzXML_file00FASTA_file00Tandem_param_file00InterProphet_filenameSpectraST_Tandemspectral_library0mzXML_file0FASTA_file0Tandem_param_file0SpectraST_filename00Tandem_filename00net.sf.taverna.t2.activitiesdataflow-activity1.4net.sf.taverna.t2.activities.dataflow.DataflowActivitynet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeInterProphetin10in20net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 69cf65c8-5828-4959-bbf2-c160e0272668 C:\Inetpub\tpp-bin\InterProphetParser.exe "%%in1%%" "%%in2%%" "%%in1%%.iproph.pep.xml" 1200 1800 in1 in2 in2 in2 false false false windows-1252 false false false in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_InterProphet_filenametandem_filename0iproph_filename00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity tandem_filename 0 text/plain java.lang.String true iproph_filename 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraST_Tandemspectral_libraryspectral_librarySpectraST_TandemmzXML_filemzXML_fileSpectraST_TandemFASTA_fileFASTA_fileSpectraST_TandemTandem_param_fileTandem_param_fileInterProphetin1SpectraST_TandemTandem_filenameInterProphetin2SpectraST_TandemSpectraST_filenamegenerate_InterProphet_filenametandem_filenameSpectraST_TandemTandem_filenameInterProphet_filenamegenerate_InterProphet_filenameiproph_filename dc10df38-05e2-41c7-8700-763eda620329 2012-07-30 13:39:50.193 UTC 69d5804f-cfda-4dc1-9686-1b16e9275fba 2012-07-27 14:36:42.8 UTC 91bbc953-8cd5-401c-b186-fa9c2b543cc6 2012-07-31 14:21:40.410 UTC beb7042f-32de-4dc2-8902-f16b3a53fa13 2012-07-27 15:47:16.131 UTC 422a2b2a-87c1-46e9-b0f5-1a50edaae2be 2012-07-27 13:48:26.774 UTC 58e18ef3-609f-4111-b381-5c607f553085 2012-07-27 15:27:16.153 UTC 8846365a-20ac-49c5-8a2d-548afbff4d2c 2012-07-27 14:00:29.777 UTC 368267a7-d79b-48f9-b676-281f2e325592 2012-07-27 13:50:27.474 UTC 0f39d4e9-abfc-41fd-818a-c96cd54111f5 2012-07-31 12:19:21.554 UTC 8fda911e-fcb4-40b4-bcaf-066af92cc6de 2012-07-27 13:54:41.95 UTC Workflow1FASTA_file00mzXML_file00Tandem_param_file00spectral_library00Tandem_filenameSpectraST_filenameTandem2XMLin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 1c8bfa82-c0b9-43a2-91cb-f3829e17524d C:\Inetpub\tpp-bin\Tandem2XML.exe "%%in1%%" "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_filenametandem_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-30 15:49:06.12 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_Tandemin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%.pep.xml" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeSpectraSTmzxml_file0library_splib_file0parameters0output_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity library_splib_file 0 text/plain java.lang.String true mzxml_file 0 text/plain java.lang.String true parameters 0 text/plain java.lang.String true output_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeparametersvalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity -sTAA -sCCAM -sA! -s_HOM4 -sR! net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokePeptideProphet_SpectraSTin10net.sf.taverna.t2.activitiesexternal-tool-activity1.4net.sf.taverna.t2.activities.externaltool.ExternalToolActivity 789663B8-DA91-428A-9F7D-B3F3DA185FD4 default local <?xml version="1.0" encoding="UTF-8"?> <localInvocation /> 0d2eda5e-7889-4b15-bc14-9613cdf73440 C:\Inetpub\tpp-bin\xinteract.exe -N"%%in1%%.interact.pep.xml" -p0.95 -l7 -OI "%%in1%%" 1200 1800 in1 in1 in1 false false false windows-1252 false false false false false false 0 false net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_SpectraST_filenamespectrast_filename0interact_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity spectrast_filename 0 'text/plain' java.lang.String true interact_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-06-11 09:38:48.288 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandemfasta_file0mzxml_file0parameter_file0tandem_file00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity mzxml_file 0 text/plain java.lang.String true fasta_file 0 text/plain java.lang.String true parameter_file 0 text/plain java.lang.String true tandem_file 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_Tandem_pepXML_filenametandem_filename0pepXML_filename00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity tandem_filename 0 'text/plain' java.lang.String true pepXML_filename 0 0 workflow org.embl.ebi.escience.scuflworkers.java.StringConcat UserNameHere 2012-07-30 15:48:36.18 UTC net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.InvokeTandem2XMLin1Tandemtandem_filegenerate_Tandem_filenametandem_filenameTandemtandem_filePeptideProphet_Tandemin1generate_Tandem_pepXML_filenamepepXML_filenameSpectraSTmzxml_filemzXML_fileSpectraSTlibrary_splib_filespectral_librarySpectraSTparametersparametersvaluePeptideProphet_SpectraSTin1SpectraSToutput_filegenerate_SpectraST_filenamespectrast_filenameSpectraSToutput_fileTandemfasta_fileFASTA_fileTandemmzxml_filemzXML_fileTandemparameter_fileTandem_param_filegenerate_Tandem_pepXML_filenametandem_filenameTandemtandem_fileTandem_filenamegenerate_Tandem_filenameinteract_filenameSpectraST_filenamegenerate_SpectraST_filenameinteract_filename 8e857b78-8720-4419-986b-91b50f428f7a 2012-06-07 17:33:34.800 UTC 1455895c-87d2-4d2b-9eba-0b32ac20045e 2012-06-07 17:30:43.763 UTC 2f2a554f-7e88-41bd-9f20-54c94e706bff 2012-06-08 13:40:11.213 UTC 39a5ba2f-fb81-4bd0-aec0-e7558b19411b 2012-06-07 16:52:52.948 UTC e4a606bc-91af-4c3d-b21a-512c2176bc7c 2012-07-30 15:34:55.229 UTC d5b83e42-c712-44b7-aad2-1da3431dddaa 2012-06-07 17:13:41.502 UTC 6f68c5e2-efc6-45e1-ab95-5d47022afb03 2011-01-14 15:44:26.34 UTC 3b217286-b6ff-46b8-ada6-e85a30c336fd 2012-06-11 11:30:00.926 UTC 95d3d712-26db-45c8-8ee9-285240f230c4 2012-06-07 17:23:08.204 UTC 49be1d97-bd5f-435c-92c8-284a6badda1f 2012-06-07 13:42:50.176 UTC eb2a5ac6-dda2-4b48-8d7c-58c36f9502f7 2011-04-12 14:35:36.741 UTC 5af074ed-bd32-44e0-a45e-5458b7767fd5 2012-06-07 16:06:22.883 UTC 5ec256eb-e756-4dfe-a469-0ba337c6dc22 2012-07-30 15:51:18.921 UTC 4db4a7b9-a993-4ece-a634-9595d94ded82 2012-06-07 17:32:54.422 UTC 1f1a2e96-0005-4f99-a952-0b258fc05574 2012-06-07 16:47:34.139 UTC 5462707a-879b-4444-bc3b-baa83a8a94db 2012-06-07 16:56:17.971 UTC dc1dbd33-5f24-4046-8743-e5d118f1d7dd 2012-06-07 15:52:13.282 UTC 26e3310c-558b-484d-9bf8-dbd94bdab7d9 2011-04-06 16:18:09.939 UTC fa97d580-99cd-4469-bec6-a5c3546fbaeb 2012-06-08 14:10:39.77 UTC 53dedd63-ed91-4471-9f04-e865704e95d3 2012-06-07 16:38:49.753 UTC 7ee7024a-c68f-4d58-a440-b2e90133cb77 2012-06-08 15:23:28.334 UTC 19f72c62-ed1a-4c8f-bb6e-01fb1bd800b5 2011-04-07 14:38:29.321 UTC 1ca3f6fe-ff28-4b00-ab70-9e33aee57f88 2012-06-07 17:37:05.63 UTC 2ef4b150-c4c3-4723-bb94-13354855488f 2012-06-08 19:31:08.496 UTC 0c63e3d2-612d-403e-b86f-0562818e948d 2012-06-07 17:05:48.560 UTC bc702e4d-e1d7-44e9-869d-675892d96ff6 2012-06-12 08:40:58.508 UTC 90cdc6b0-abd6-4ef2-b16b-12bb7337d544 2012-06-07 17:26:52.201 UTC df047adb-8e0d-4adb-87a5-bde5acbfba70 2012-07-27 14:33:54.378 UTC e0298812-2dd2-4d05-b415-2e32cd4d8036 2012-06-08 12:50:54.134 UTC c649a808-b49c-4cbd-8cfe-fa9f3ada6ab0 2012-06-07 16:35:20.401 UTC b9c68ff8-76f2-4726-a7a2-aec8f92efc19 2012-06-08 15:43:07.437 UTC 3b4f7ad2-695a-4b8e-992e-184f2686a654 2012-06-08 14:28:55.642 UTC 7a668ae6-8ce8-4c61-bf67-5828ee27f5a0 2012-06-08 14:36:25.117 UTC 61400c60-e1f7-41d4-8c21-bfd12371c16b 2012-06-08 14:52:09.464 UTC 7e1de6d3-d34b-477e-9c7c-4aa05504fb93 2012-07-27 13:59:13.870 UTC 770783cb-c3b8-420a-a5c7-c4309d87ac98 2012-07-27 15:26:01.485 UTC dd7955fd-0cde-444a-84e9-003bba99d9f7 2012-06-08 14:32:28.149 UTC 34b7fea4-4cf7-4dc4-b6f9-7f3c955af477 2011-12-01 12:04:42.550 UTC 4a7d22ab-d891-44c7-95e8-94eec173bfb1 2012-06-07 17:35:58.462 UTC 3e70efed-ec50-4f8d-8708-f6867ecf503b 2012-07-27 15:46:12.625 UTC 3989acab-88ec-4744-ad54-41ab932adf5a 2012-06-07 17:07:35.938 UTC dab6549f-672b-4b4d-8482-70483637f7bf 2012-06-07 17:10:40.548 UTC bb0978fb-bb46-44f0-8595-78c4101eecda 2012-06-07 17:25:28.429 UTC fee5a046-8e03-42f0-b3b8-2d2b7201ae1f 2012-06-07 17:24:55.816 UTC 23b08ec0-6c7b-4bbd-a796-7233d2a93c7a 2011-03-01 10:42:27.896 UTC d53e0466-3b98-4922-a83a-8e42e4082200 2012-06-07 17:27:37.982 UTC 19f9afea-461d-42a4-9e3c-b1beff044faa 2012-01-02 11:01:38.855 UTC ca6f4368-c04c-4aa9-9bce-7dd623c71fbc 2012-06-07 16:54:16.160 UTC 3b745b6b-b340-43b0-bff5-fbd2fc3a00bb 2012-06-08 14:04:21.679 UTC 0a640cb0-85c0-476f-b968-66854439f28c 2012-06-11 09:44:55.230 UTC 7f7c6977-8634-446c-9e28-b2bbe9c0d435 2011-04-12 14:37:50.373 UTC eef566f9-79ad-43ad-9f09-bdf3ba2b308c 2012-02-21 14:21:57.453 UTC 37ee026a-1003-4d94-804f-b8dfb6c5b1cf 2012-06-11 09:19:19.938 UTC d47a341b-2046-43b1-87f1-1f0c97748198 2011-01-31 10:01:17.418 UTC b82bd131-139e-4072-b2eb-8e358f3b80ef 2011-12-01 12:05:51.521 UTC 91d9e752-52c9-4a56-8646-2669e2f4c210 2012-07-27 13:48:05.107 UTC 8dead0c2-0045-4582-8942-8bbfa68a57d6 2012-06-08 15:40:18.808 UTC 4d019938-0342-4bdd-a387-615d80eb22ab 2012-06-07 17:12:49.239 UTC 6c0b38cd-c89b-45d8-be50-8230e81c27e8 2012-06-08 13:46:51.676 UTC b6422fb3-a2bc-48b2-a151-f26f83e1f1b0 2012-06-07 17:18:03.782 UTC fa0cf99c-15b5-4312-a025-e9b607210cdd 2012-06-07 17:04:56.856 UTC e5fa5551-84b5-4cae-be10-8bbc6ae85402 2011-03-30 08:58:44.949 UTC 45d1674a-08d8-46da-8c83-01d62ac6a2da 2011-01-14 16:22:58.378 UTC 4f560972-1edb-4771-bfe7-76d6baad98e5 2012-06-07 17:22:17.250 UTC 1d0c68b2-4914-4bc0-a96e-4aa36b91b28f 2012-06-11 09:59:11.821 UTC dcfe6737-31a5-4cad-8b6b-b4fa91d260b0 2012-06-08 14:25:35.207 UTC 1646f54e-f7fb-4bf3-9012-a0974562f13a 2012-06-07 17:14:49.311 UTC 9e8a1638-208c-45ec-be18-9e21599f2124 2012-06-08 14:20:47.852 UTC 0dcaaec2-6041-4933-8b39-bf6b7493702e 2012-06-07 17:06:33.899 UTC 0aaa9cfd-beef-4080-8c4c-8bf07b19c8ad 2012-06-08 14:25:59.621 UTC 93418c27-60c9-469a-8c3a-08ecb19f8606 2012-06-08 13:40:17.284 UTC 3106a37e-c8c7-4a97-88ec-f1213785dbe4 2012-06-07 16:49:31.387 UTC fecc8412-b94b-4aa3-8e49-120f5833de64 2011-04-12 14:39:16.474 UTC e5d118e3-2916-4365-ae29-4984d3e1b4f6 2011-01-14 15:49:18.610 UTC 14f795cd-a6ab-445c-9026-a5d6589fce2e 2012-06-08 14:06:02.687 UTC 396de493-2817-4b27-b550-f28aa4d3eba4 2012-06-08 14:27:24.12 UTC 3ea33be4-1c29-41d2-a7e9-c595e350f043 2012-06-08 13:48:34.478 UTC 90706fef-2caa-42aa-8bc1-248cab3e6a94 2012-06-08 15:15:54.852 UTC ea9bb0fd-35d6-45af-8773-506a8bcadc24 2011-03-02 14:12:29.703 UTC 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neg_obs_dens="0" pos_obs_dens="0.00273558"/> <point value="1.54579" pos_dens="0.00426809" neg_dens="0.00802035" neg_obs_dens="0" pos_obs_dens="0.00272896"/> <point value="1.54893" pos_dens="0.00425891" neg_dens="0.00801628" neg_obs_dens="0" pos_obs_dens="0.00272172"/> <point value="1.55206" pos_dens="0.00424857" neg_dens="0.00800912" neg_obs_dens="0" pos_obs_dens="0.00271383"/> <point value="1.5552" pos_dens="0.00423704" neg_dens="0.00799887" neg_obs_dens="0" pos_obs_dens="0.00270527"/> </mixturemodel> <mixturemodel name="TopCat"> </mixturemodel> </analysis_summary> <analysis_summary analysis="database_refresh" time="2012-06-11T14:24:57"/> <analysis_summary analysis="interact" time="2012-06-11T14:24:54"> <interact_summary filename="e:/Taverna/data/Test/Ecoli.tandem.interact.pep.xml" directory=""> <inputfile name="E:\Taverna\data\Test\Ecoli.tandem.pep.xml"/> </interact_summary> </analysis_summary> <msms_run_summary base_name="E:\Taverna\data\Test\Ecoli" search_engine="X! Tandem (k-score)" msManufacturer="Bruker Daltonics" msModel="esquire" msIonization="ESI" msMassAnalyzer="Quadrupole Ion Trap" msDetector="UNKNOWN" raw_data_type="raw" raw_data=".mzXML"> <sample_enzyme name="trypsin"> <specificity cut="KR" no_cut="P" sense="C"/> </sample_enzyme> <search_summary base_name="E:\Taverna\data\Test\Ecoli" search_engine="X! Tandem (k-score)" precursor_mass_type="monoisotopic" fragment_mass_type="monoisotopic" search_id="1"> <search_database local_path="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta" type="AA"/> <enzymatic_search_constraint enzyme="trypsin" max_num_internal_cleavages="2" min_number_termini="2"/> <aminoacid_modification aminoacid="C" massdiff="57.0215" mass="160.0306" variable="N"/> <aminoacid_modification aminoacid="C" massdiff="-17.0265" mass="143.0041" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="E" massdiff="-18.0106" mass="111.0320" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="M" massdiff="15.9949" mass="147.0354" variable="Y"/> <aminoacid_modification aminoacid="Q" massdiff="-17.0265" mass="111.0321" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <!-- Input parameters --> <parameter name="list path, taxonomy information" value="E:\Taverna\data\Test\Ecoli.taxonomy.xml"/> <parameter name="output, histogram column width" value="30"/> <parameter name="output, histograms" value="no"/> <parameter name="output, maximum valid expectation value" value="0.1"/> <parameter name="output, message" value="1234567890"/> <parameter name="output, one sequence copy" value="no"/> <parameter name="output, parameters" value="yes"/> <parameter name="output, path" value="E:\Taverna\data\Test\Ecoli.tandem"/> <parameter name="output, path hashing" value="no"/> <parameter name="output, performance" value="yes"/> <parameter name="output, proteins" value="yes"/> <parameter name="output, results" value="all"/> <parameter name="output, sequences" value="no"/> <parameter name="output, sort results by" value="spectrum"/> <parameter name="output, spectra" value="yes"/> <parameter name="protein, C-terminal residue modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer 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<parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01625.01625.2" start_scan="1625" end_scan="1625" precursor_neutral_mass="1152.2677" assumed_charge="2" index="36" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="-0.277" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" end_scan="899" precursor_neutral_mass="1158.7499" assumed_charge="2" index="37" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="283"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9797" all_ntt_prob="(0.0000,0.2612,0.9797)"> <search_score_summary> <parameter name="fval" value="2.9717"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.91549" all_ntt_prob="(0,0.0735236,0.91549)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4879"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01690.01690.2" start_scan="1690" end_scan="1690" precursor_neutral_mass="1161.5443" assumed_charge="2" index="38" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGFTVELNGIR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1161.6137" massdiff="-0.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="249"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8990" all_ntt_prob="(0.0000,0.0611,0.8990)"> <search_score_summary> <parameter name="fval" value="2.7485"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.98533" all_ntt_prob="(0,0.329344,0.98533)"> <search_score_summary> <parameter name="nss" value="0.8985"/> <parameter name="nrs" value="0.495"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01546.01546.2" start_scan="1546" end_scan="1546" precursor_neutral_mass="1170.8580" assumed_charge="2" index="39" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="460"/> <search_score name="nextscore" value="367"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9911" all_ntt_prob="(0.0000,0.4474,0.9911)"> <search_score_summary> <parameter name="fval" value="3.5964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999873" all_ntt_prob="(0,0.982833,0.999873)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="2.4932"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01516.01516.2" start_scan="1516" end_scan="1516" precursor_neutral_mass="1171.4112" assumed_charge="2" index="40" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.762" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> 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name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.345"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0189065" all_ntt_prob="(0,0.000138591,0.0189065)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0749"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01481.01481.2" start_scan="1481" end_scan="1481" precursor_neutral_mass="1243.6625" assumed_charge="2" index="54" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" all_ntt_prob="(0,0.973669,0.999802)"> <search_score_summary> <parameter name="nss" value="0.8985"/> <parameter name="nrs" value="0.974499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01110.01110.2" start_scan="1110" end_scan="1110" precursor_neutral_mass="1249.3756" assumed_charge="2" index="56" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HPVTPWGVQTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="20" calc_neutral_pep_mass="1248.6617" massdiff="0.714" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01114.01114.3" start_scan="1114" end_scan="1114" precursor_neutral_mass="1262.8771" assumed_charge="3" index="57" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAIVPAANVPKK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P24554|RADA_ECOLI" protein_descr="DNA repair protein radA OS=Escherichia coli (strain K12) GN=radA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="44" calc_neutral_pep_mass="1262.7827" massdiff="0.094" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" value="3.0700"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.729"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.889547" all_ntt_prob="(0,0.0554702,0.889547)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02038.02038.2" start_scan="2038" end_scan="2038" precursor_neutral_mass="1267.8069" assumed_charge="2" index="59" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain 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name="nextscore" value="209"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9091,0.9993)"> <search_score_summary> <parameter name="fval" value="6.0374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.534"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999884" all_ntt_prob="(0,0.983666,0.999884)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01002.01002.2" start_scan="1002" end_scan="1002" precursor_neutral_mass="1284.0191" assumed_charge="2" index="61" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGEVPADVAAQAR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0AF93|YJGF_ECOLI" protein_descr="UPF0076 protein yjgF OS=Escherichia coli (strain K12) GN=yjgF" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1283.6467" massdiff="0.372" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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assumed_charge="2" index="62" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGEVPADVAAQAR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0AF93|YJGF_ECOLI" protein_descr="UPF0076 protein yjgF OS=Escherichia coli (strain K12) GN=yjgF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1283.6467" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="278"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9172" all_ntt_prob="(0.0000,0.0748,0.9172)"> <search_score_summary> <parameter name="fval" 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GN=tig" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1288.6917" massdiff="0.332" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="322"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5913,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.332"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9436,0.9996)"> <search_score_summary> <parameter name="fval" value="6.7461"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.346"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.994071,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9871"/> <parameter name="nrs" value="0.4966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01439.01439.2" start_scan="1439" end_scan="1439" precursor_neutral_mass="1319.2219" assumed_charge="2" index="68" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.588"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99947" all_ntt_prob="(0,0.931787,0.99947)"> <search_score_summary> <parameter name="nss" value="0.9893"/> <parameter name="nrs" value="0.4934"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01354.01354.2" start_scan="1354" end_scan="1354" precursor_neutral_mass="1325.5898" assumed_charge="2" index="69" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITQGDDLAPGVLK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A8V2|RPOB_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta OS=Escherichia coli (strain K12) GN=rpoB" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1325.7187" massdiff="-0.129" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="209"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4319" all_ntt_prob="(0.0000,0.0055,0.4319)"> <search_score_summary> <parameter name="fval" value="1.1892"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.129"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0993637" all_ntt_prob="(0,0.000801917,0.0993637)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01548.01548.2" start_scan="1548" end_scan="1548" precursor_neutral_mass="1331.5547" assumed_charge="2" index="70" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVADSITSQLER" peptide_prev_aa="K" peptide_next_aa="R" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1330.7097" massdiff="0.845" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9929" all_ntt_prob="(0.0000,0.5058,0.9929)"> <search_score_summary> <parameter name="fval" value="3.7842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.845"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999735" all_ntt_prob="(0,0.965069,0.999735)"> <search_score_summary> <parameter name="nss" value="0.9035"/> <parameter name="nrs" value="1.496"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VMAGLGIAVVSTSK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="26" calc_neutral_pep_mass="1331.7487" massdiff="1.008" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="368"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00098"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9970" all_ntt_prob="(0.0000,0.7083,0.9970)"> <search_score_summary> <parameter name="fval" value="5.5347"/> <parameter 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9915" all_ntt_prob="(0.0000,0.4616,0.9915)"> <search_score_summary> <parameter name="fval" value="3.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.762"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998438" all_ntt_prob="(0,0.824504,0.998438)"> <search_score_summary> <parameter name="nss" value="0.9824"/> <parameter name="nrs" value="-0.2059"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" precursor_neutral_mass="1377.7169" assumed_charge="2" index="80" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5818" all_ntt_prob="(0.0000,0.0101,0.5818)"> <search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1401.7257" massdiff="1.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]EAAPAAAPAPAAGVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9927" all_ntt_prob="(0.0000,0.4990,0.9927)"> <search_score_summary> <parameter name="fval" value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF OS=Escherichia coli (strain K12) GN=yoeF" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="24" calc_neutral_pep_mass="1403.7327" massdiff="0.742" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="216"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0542" all_ntt_prob="(0.0000,0.0004,0.0542)"> <search_score_summary> <parameter name="fval" value="-0.9048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.742"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01105.01105.2" start_scan="1105" end_scan="1105" precursor_neutral_mass="1408.9231" assumed_charge="2" index="84" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.264" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" precursor_neutral_mass="1413.9465" assumed_charge="2" index="87" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="0.164" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8659" all_ntt_prob="(0.0000,0.0451,0.8659)"> <search_score_summary> <parameter name="fval" value="1.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.164"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.570663" all_ntt_prob="(0,0.00962853,0.570663)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4016"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01645.01645.2" start_scan="1645" end_scan="1645" precursor_neutral_mass="1414.8838" assumed_charge="2" index="88" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="1.133" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2257" all_ntt_prob="(0.0000,0.0021,0.2257)"> <search_score_summary> <parameter name="fval" value="0.4379"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.133"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.105917" all_ntt_prob="(0,0.000854528,0.105917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9987"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01788.01788.2" start_scan="1788" end_scan="1788" precursor_neutral_mass="1429.4936" assumed_charge="2" index="89" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.748" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" 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</search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02000.02000.2" start_scan="2000" end_scan="2000" precursor_neutral_mass="1670.0472" assumed_charge="2" index="131" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDIAMGPLINAAALER" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P25553|ALDA_ECOLI" protein_descr="Lactaldehyde dehydrogenase OS=Escherichia coli (strain K12) GN=aldA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="30" calc_neutral_pep_mass="1667.8667" massdiff="2.180" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="220"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1163" all_ntt_prob="(0.0000,0.0010,0.1163)"> <search_score_summary> <parameter name="fval" value="1.2372"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.180"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0187404" all_ntt_prob="(0,0.000145242,0.0187404)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02120.02120.2" start_scan="2120" end_scan="2120" precursor_neutral_mass="1685.1424" assumed_charge="2" index="134" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="0.268" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8545,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4132"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.268"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999764" all_ntt_prob="(0,0.967673,0.999764)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="-0.3045"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01934.01934.2" start_scan="1934" end_scan="1934" precursor_neutral_mass="1712.7553" assumed_charge="2" index="142" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISYETATFPWAASGR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="30" calc_neutral_pep_mass="1712.8157" massdiff="-0.060" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="192"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9867" all_ntt_prob="(0.0000,0.3509,0.9867)"> <search_score_summary> <parameter name="fval" value="4.4177"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.060"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997335" all_ntt_prob="(0,0.731684,0.997335)"> <search_score_summary> <parameter name="nss" value="0.9097"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01714.01714.3" start_scan="1714" end_scan="1714" precursor_neutral_mass="1713.5535" assumed_charge="3" index="143" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESLGPTALGEGLAVPHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P54745|HRSA_ECOLI" protein_descr="Heat-responsive suppressor hrsA OS=Escherichia coli (strain K12) GN=hrsA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="68" calc_neutral_pep_mass="1713.9047" massdiff="-0.351" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]SLGPTALGEGLAVPHGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="286"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.32"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2095" all_ntt_prob="(0.0026,0.0076,0.2095)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="2.9430"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.351"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.037035" all_ntt_prob="(0.000378146,0.00111011,0.037035)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02114.02114.2" start_scan="2114" end_scan="2114" precursor_neutral_mass="1714.4463" assumed_charge="2" index="144" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.578" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="232"/> <search_score name="nextscore" value="194"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1946" all_ntt_prob="(0.0000,0.0018,0.1946)"> <search_score_summary> <parameter name="fval" value="-0.1821"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.578"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.295507" all_ntt_prob="(0,0.00312074,0.295507)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9991"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02137.02137.2" start_scan="2137" end_scan="2137" precursor_neutral_mass="1714.6850" assumed_charge="2" index="145" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.816" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="415"/> <search_score name="nextscore" value="211"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9213,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2401"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.816"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999981" all_ntt_prob="(0,0.997309,0.999981)"> <search_score_summary> <parameter name="nss" value="0.9818"/> <parameter name="nrs" value="0.1943"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02972.02972.2" start_scan="2972" end_scan="2972" precursor_neutral_mass="1724.4654" assumed_charge="2" index="146" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGVQEDILEILLNLK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7Z4|RPOA_ECOLI" protein_descr="DNA-directed RNA polymerase subunit alpha OS=Escherichia coli (strain K12) GN=rpoA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1724.9557" massdiff="-0.490" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="152"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8490" all_ntt_prob="(0.0000,0.0395,0.8490)"> <search_score_summary> <parameter name="fval" value="2.4339"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.490"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.449317" all_ntt_prob="(0,0.00593247,0.449317)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03558.03558.2" start_scan="3558" end_scan="3558" precursor_neutral_mass="1740.7058" assumed_charge="2" index="147" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDNGLAHIGVVSDGFAR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P32668|YIJF_ECOLI" protein_descr="Uncharacterized protein yijF OS=Escherichia coli (strain K12) GN=yijF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1739.8957" massdiff="0.810" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="207"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0596" all_ntt_prob="(0.0000,0.0005,0.0596)"> <search_score_summary> <parameter name="fval" value="-0.8551"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.810"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00911334" all_ntt_prob="(0,7.25898e-005,0.00911334)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02122.02122.3" start_scan="2122" end_scan="2122" precursor_neutral_mass="1742.2523" assumed_charge="3" index="148" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AWNMLVALQAGNIVAR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P39874|YBEM_ECOLI" protein_descr="Putative UPF0012 hydrolase ybeM OS=Escherichia coli (strain K12) GN=ybeM" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="60" calc_neutral_pep_mass="1741.9297" massdiff="0.323" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AWNM[147]LVALQAGNIVAR"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" 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num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1499" all_ntt_prob="(0.0017,0.0051,0.1499)"> <search_score_summary> <parameter name="fval" value="0.5408"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0249504" all_ntt_prob="(0.000247059,0.000743341,0.0249504)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03859.03859.3" start_scan="3859" end_scan="3859" precursor_neutral_mass="2959.1409" assumed_charge="3" index="192" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATPDELAPFAKADGSMGPNVTAVSGYVR" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0184902" all_ntt_prob="(0.000188863,0.000538639,0.0184902)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03759.03759.3" start_scan="3759" end_scan="3759" precursor_neutral_mass="2729.9031" assumed_charge="3" index="193" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AMTVAVIIAGLLPILWGTGAGSEVMSR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P38054|CUSA_ECOLI" protein_descr="Cation efflux system protein cusA OS=Escherichia coli (strain K12) GN=cusA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="104" calc_neutral_pep_mass="2728.4657" massdiff="1.437" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AM[147]TVAVIIAGLLPILWGTGAGSEVMSR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="329"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0704" all_ntt_prob="(0.0007,0.0022,0.0704)"> <search_score_summary> <parameter name="fval" value="-0.1351"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.437"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score 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value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1925.9667" massdiff="0.717" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <modification_info modified_peptide="AQYDRVM[147]EELYPRLK"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="351"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2356" all_ntt_prob="(0.0030,0.0088,0.2356)"> <search_score_summary> <parameter name="fval" value="2.8181"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.717"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> 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name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01322.01322.2" start_scan="1322" end_scan="1322" precursor_neutral_mass="1746.9547" assumed_charge="2" index="241" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQEQTMLNVADNSGAR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0ADY3|RL14_ECOLI" protein_descr="50S ribosomal protein L14 OS=Escherichia coli (strain K12) GN=rplN" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1745.8367" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0056"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" 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<parameter name="nss" value="0.9896"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00828.00828.2" start_scan="828" end_scan="828" precursor_neutral_mass="1505.8950" assumed_charge="2" index="277" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VINSGQVCNCAER" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P25553|ALDA_ECOLI" protein_descr="Lactaldehyde dehydrogenase OS=Escherichia coli (strain K12) GN=aldA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1505.6717" massdiff="0.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VINSGQVCNCAER"> <mod_aminoacid_mass position="8" mass="160.0306"/> <mod_aminoacid_mass position="10" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="415"/> <search_score name="nextscore" value="199"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9363,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5547"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999923" all_ntt_prob="(0,0.989593,0.999923)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02039.02039.2" start_scan="2039" end_scan="2039" precursor_neutral_mass="1500.5483" assumed_charge="2" index="279" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VIPYWNETILPR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P62707|GPMA_ECOLI" protein_descr="2,3-bisphosphoglycerate-dependent phosphoglycerate mutase OS=Escherichia coli (strain K12) GN=gpmA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1499.8137" massdiff="0.735" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="305"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9179" all_ntt_prob="(0.0000,0.0756,0.9179)"> <search_score_summary> <parameter name="fval" value="1.9833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.735"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.714667" all_ntt_prob="(0,0.0179918,0.714667)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01789.01789.2" start_scan="1789" end_scan="1789" precursor_neutral_mass="1490.6917" assumed_charge="2" index="280" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGWQAEEAVDIAR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1490.7157" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3238" all_ntt_prob="(0.0000,0.0035,0.3238)"> <search_score_summary> <parameter name="fval" value="0.9246"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0649748" all_ntt_prob="(0,0.000509436,0.0649748)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01308.01308.2" start_scan="1308" end_scan="1308" precursor_neutral_mass="1463.5334" assumed_charge="2" index="283" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VATEFSETAPATLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A799|PGK_ECOLI" protein_descr="Phosphoglycerate kinase OS=Escherichia coli (strain K12) GN=pgk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1463.7507" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="305"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9815" all_ntt_prob="(0.0000,0.2791,0.9815)"> <search_score_summary> <parameter name="fval" value="4.1240"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998837" all_ntt_prob="(0,0.862403,0.998837)"> <search_score_summary> <parameter name="nss" value="0.95"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02573.02573.2" start_scan="2573" end_scan="2573" precursor_neutral_mass="1460.0265" assumed_charge="2" index="284" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGGNSLLDLVVFGR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="1.207" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.008"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9481" all_ntt_prob="(0.0000,0.1178,0.9481)"> <search_score_summary> <parameter name="fval" value="2.9857"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.207"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.805233" all_ntt_prob="(0,0.0293338,0.805233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4959"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01987.01987.2" start_scan="1987" end_scan="1987" precursor_neutral_mass="1459.1369" assumed_charge="2" index="285" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGANAILAVSLANAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="28" calc_neutral_pep_mass="1458.8197" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="214"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1674" all_ntt_prob="(0.0000,0.0015,0.1674)"> <search_score_summary> <parameter name="fval" value="-0.2762"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0283497" all_ntt_prob="(0,0.000217956,0.0283497)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02070.02070.2" start_scan="2070" end_scan="2070" precursor_neutral_mass="1458.9845" assumed_charge="2" index="286" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIGEILELAGCDR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A870|TALB_ECOLI" protein_descr="Transaldolase B OS=Escherichia coli (strain K12) GN=talB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1458.7137" massdiff="0.271" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NIGEILELAGCDR"> <mod_aminoacid_mass position="11" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="197"/> <search_score name="nextscore" value="131"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.13"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6365" all_ntt_prob="(0.0000,0.0126,0.6365)"> <search_score_summary> <parameter name="fval" value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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<search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" precursor_neutral_mass="1428.8421" assumed_charge="2" index="291" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.096" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="197"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.59"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1379" all_ntt_prob="(0.0000,0.0012,0.1379)"> <search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1412.7627" massdiff="0.065" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="167"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9987" all_ntt_prob="(0.0000,0.8444,0.9987)"> <search_score_summary> <parameter name="fval" value="5.3274"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996688,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9886"/> <parameter name="nrs" value="1.9201"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01064.01064.2" start_scan="1064" end_scan="1064" precursor_neutral_mass="1408.7970" assumed_charge="2" index="294" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01112.01112.2" start_scan="1112" end_scan="1112" precursor_neutral_mass="1408.3456" assumed_charge="2" index="295" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="-0.313" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1287" all_ntt_prob="(0.0000,0.0011,0.1287)"> <search_score_summary> <parameter name="fval" value="0.2805"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.313"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.180636" all_ntt_prob="(0,0.00164087,0.180636)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.267"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01220.01220.2" start_scan="1220" end_scan="1220" precursor_neutral_mass="1404.7441" assumed_charge="2" index="296" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.041" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="223"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7700,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8343"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.041"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999777" all_ntt_prob="(0,0.970701,0.999777)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4766"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01860.01860.2" start_scan="1860" end_scan="1860" precursor_neutral_mass="1404.3839" assumed_charge="2" index="297" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGGESVLAGSIIVR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A7L8|RL27_ECOLI" protein_descr="50S ribosomal protein L27 OS=Escherichia coli (strain K12) GN=rpmA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1403.7777" massdiff="0.606" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9976" all_ntt_prob="(0.0000,0.7507,0.9976)"> <search_score_summary> <parameter name="fval" value="4.7321"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.606"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999619" all_ntt_prob="(0,0.949988,0.999619)"> <search_score_summary> <parameter name="nss" value="0.9805"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01918.01918.2" start_scan="1918" end_scan="1918" precursor_neutral_mass="1401.7956" assumed_charge="2" index="298" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YLGGSVHATAGTLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P75818|YBJP_ECOLI" protein_descr="Uncharacterized lipoprotein ybjP OS=Escherichia coli (strain K12) GN=ybjP" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1401.7367" massdiff="0.059" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="207"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0674" all_ntt_prob="(0.0000,0.0005,0.0674)"> <search_score_summary> <parameter name="fval" value="-0.7895"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.059"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0103789" all_ntt_prob="(0,7.25898e-005,0.0103789)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01638.01638.2" start_scan="1638" end_scan="1638" precursor_neutral_mass="1377.5447" assumed_charge="2" index="299" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="324"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1215" all_ntt_prob="(0.0000,0.0010,0.1215)"> <search_score_summary> <parameter name="fval" value="-0.4659"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.423"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0196754" all_ntt_prob="(0,0.000145242,0.0196754)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00991.00991.2" start_scan="991" end_scan="991" precursor_neutral_mass="1358.5030" assumed_charge="2" index="303" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AEITPANADTVTR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1357.6837" massdiff="0.819" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4348" all_ntt_prob="(0.0000,0.0056,0.4348)"> <search_score_summary> <parameter name="fval" value="0.4259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.819"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.100426" all_ntt_prob="(0,0.000816568,0.100426)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00902.00902.2" start_scan="902" end_scan="902" precursor_neutral_mass="1348.3896" assumed_charge="2" index="304" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QSVDQPVQTGYK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ABB0|ATPA_ECOLI" protein_descr="ATP synthase subunit alpha OS=Escherichia coli (strain K12) GN=atpA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1348.6627" massdiff="-0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="258"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.18"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7939" all_ntt_prob="(0.0000,0.0274,0.7939)"> <search_score_summary> <parameter name="fval" value="2.1844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> 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value="0"/> <parameter name="massd" value="-0.493"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998871" all_ntt_prob="(0,0.867159,0.998871)"> <search_score_summary> <parameter name="nss" value="0.8552"/> <parameter name="nrs" value="-0.0586"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00907.00907.2" start_scan="907" end_scan="907" precursor_neutral_mass="1332.0508" assumed_charge="2" index="309" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LTGMVQDAQQNK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P09394|GLPQ_ECOLI" protein_descr="Glycerophosphoryl diester phosphodiesterase OS=Escherichia coli (strain K12) GN=glpQ" num_tot_proteins="1" 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all_ntt_prob="(0,0.00127198,0.147726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02813.02813.2" start_scan="2813" end_scan="2813" precursor_neutral_mass="1328.8760" assumed_charge="2" index="310" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWLQAIESVIR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1328.7087" massdiff="0.167" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9933" all_ntt_prob="(0.0000,0.5208,0.9933)"> <search_score_summary> <parameter name="fval" value="3.8332"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.167"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.983678" all_ntt_prob="(0,0.306425,0.983678)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.998899"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997957" all_ntt_prob="(0,0.781645,0.997957)"> <search_score_summary> <parameter name="nss" value="0.9757"/> <parameter name="nrs" value="0.3369"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02782.02782.2" start_scan="2782" end_scan="2782" precursor_neutral_mass="1244.1000" assumed_charge="2" index="327" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALEEAGAEVEVK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1243.6297" massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> 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value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00892.00892.2" start_scan="892" end_scan="892" precursor_neutral_mass="1158.6135" assumed_charge="2" index="344" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="-0.011" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="211"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9879" all_ntt_prob="(0.0000,0.3733,0.9879)"> <search_score_summary> <parameter name="fval" value="4.5061"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.011"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995379" all_ntt_prob="(0,0.611144,0.995379)"> <search_score_summary> <parameter name="nss" value="0.6736"/> <parameter name="nrs" value="0.4797"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01312.01312.2" start_scan="1312" end_scan="1312" precursor_neutral_mass="1149.8955" assumed_charge="2" index="346" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="APVVVPAGVDVK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.220" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="363"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8901,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7794"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.220"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99995" all_ntt_prob="(0,0.993226,0.99995)"> <search_score_summary> <parameter name="nss" value="0.9891"/> <parameter name="nrs" value="0.999799"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00919.00919.2" start_scan="919" end_scan="919" precursor_neutral_mass="1139.4214" assumed_charge="2" index="347" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YYQGTPSPVK" peptide_prev_aa="R" peptide_next_aa="H" protein="sp|P08200|IDH_ECOLI" protein_descr="Isocitrate dehydrogenase [NADP] OS=Escherichia coli (strain K12) GN=icd" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1138.5657" massdiff="0.856" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9230" all_ntt_prob="(0.0000,0.0805,0.9230)"> <search_score_summary> <parameter name="fval" value="2.0270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.856"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.97662" all_ntt_prob="(0,0.233761,0.97662)"> <search_score_summary> <parameter name="nss" value="0.8182"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01654.01654.2" start_scan="1654" end_scan="1654" precursor_neutral_mass="1129.3514" assumed_charge="2" index="349" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.713" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.13"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9687" all_ntt_prob="(0.0000,0.1843,0.9687)"> <search_score_summary> <parameter name="fval" value="2.6557"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.92606" all_ntt_prob="(0,0.083775,0.92606)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9954"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01339.01339.2" start_scan="1339" end_scan="1339" precursor_neutral_mass="1125.7409" assumed_charge="2" index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.159"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.992577" all_ntt_prob="(0,0.500281,0.992577)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4421"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01276.01276.2" start_scan="1276" end_scan="1276" precursor_neutral_mass="1122.2204" assumed_charge="2" index="352" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IFVDEGPSMK" peptide_prev_aa="K" peptide_next_aa="R" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1121.5427" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="231"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9729" all_ntt_prob="(0.0000,0.2078,0.9729)"> <search_score_summary> <parameter name="fval" value="2.7598"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.838964" all_ntt_prob="(0,0.0366696,0.838964)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01384.01384.2" start_scan="1384" end_scan="1384" precursor_neutral_mass="1112.8979" assumed_charge="2" index="353" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.290" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03087.03087.1" start_scan="3087" end_scan="3087" precursor_neutral_mass="1107.7485" assumed_charge="1" index="354" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.213" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="170"/> <search_score name="nextscore" value="144"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8763" all_ntt_prob="(0.0000,0.8794,0.8763)"> <search_score_summary> <parameter name="fval" value="0.4935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.213"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590231" all_ntt_prob="(0,0.597205,0.590231)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.389"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01888.01888.2" start_scan="1888" end_scan="1888" precursor_neutral_mass="1104.0155" assumed_charge="2" index="355" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ILADIAVFDK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A7L3|RL20_ECOLI" protein_descr="50S ribosomal protein L20 OS=Escherichia coli (strain K12) GN=rplT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1103.6227" massdiff="0.393" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="543"/> <search_score name="nextscore" value="329"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9339,0.9995)"> <search_score_summary> <parameter name="fval" value="6.4995"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.393"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996565" all_ntt_prob="(0,0.672164,0.996565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01630.01630.2" start_scan="1630" end_scan="1630" precursor_neutral_mass="1083.9511" assumed_charge="2" index="358" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VIVEGINLVK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P60624|RL24_ECOLI" protein_descr="50S ribosomal protein L24 OS=Escherichia coli (strain K12) GN=rplX" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1082.6697" massdiff="1.281" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="477"/> <search_score name="nextscore" value="276"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9982" all_ntt_prob="(0.0000,0.8032,0.9982)"> <search_score_summary> <parameter name="fval" value="6.1600"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.281"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999816" all_ntt_prob="(0,0.975561,0.999816)"> <search_score_summary> <parameter name="nss" value="0.977"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01624.01624.2" start_scan="1624" end_scan="1624" precursor_neutral_mass="1082.9529" assumed_charge="2" index="359" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VIVEGINLVK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P60624|RL24_ECOLI" protein_descr="50S ribosomal protein L24 OS=Escherichia coli (strain K12) GN=rplX" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="18" calc_neutral_pep_mass="1082.6697" massdiff="0.283" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="492"/> <search_score name="nextscore" value="251"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00092"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9531,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.283"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.99516,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01732.01732.2" start_scan="1732" end_scan="1732" precursor_neutral_mass="1082.2839" assumed_charge="2" index="360" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="0.609" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="487"/> <search_score name="nextscore" value="363"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0055"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6892,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4472"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.609"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999659" all_ntt_prob="(0,0.955598,0.999659)"> <search_score_summary> <parameter name="nss" value="0.9854"/> <parameter name="nrs" value="0.4697"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> 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name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.3" start_scan="1240" end_scan="1240" precursor_neutral_mass="1647.7738" assumed_charge="3" index="455" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAKKLALMAMEQAR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P39337|YJGM_ECOLI" protein_descr="Uncharacterized N-acetyltransferase yjgM OS=Escherichia coli (strain K12) GN=yjgM" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="56" calc_neutral_pep_mass="1645.9007" massdiff="1.873" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="GLAKKLALMAM[147]EQAR"> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="287"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02509.02509.2" start_scan="2509" end_scan="2509" precursor_neutral_mass="1643.5940" assumed_charge="2" index="456" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SVEELNTELLNLLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7M6|RL29_ECOLI" protein_descr="50S ribosomal protein L29 OS=Escherichia coli (strain K12) GN=rpmC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1641.8937" massdiff="1.700" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="326"/> <search_score name="nextscore" value="256"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8197" all_ntt_prob="(0.0000,0.0322,0.8197)"> <search_score_summary> <parameter name="fval" value="2.0423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.700"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.504966" all_ntt_prob="(0,0.00740982,0.504966)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4875"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01838.01838.2" start_scan="1838" end_scan="1838" precursor_neutral_mass="1642.7671" assumed_charge="2" index="457" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FFQVYDPAYYDSK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P33602|NUOG_ECOLI" protein_descr="NADH-quinone oxidoreductase subunit G OS=Escherichia coli (strain K12) GN=nuoG" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1641.7347" massdiff="1.032" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="227"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.079"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7140" all_ntt_prob="(0.0000,0.0179,0.7140)"> <search_score_summary> <parameter name="fval" value="1.6677"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.032"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.26594" all_ntt_prob="(0,0.00263797,0.26594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01771.01771.2" start_scan="1771" end_scan="1771" precursor_neutral_mass="1615.2049" assumed_charge="2" index="460" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.381" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="368"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9914" all_ntt_prob="(0.0000,0.4573,0.9914)"> <search_score_summary> <parameter name="fval" value="4.4701"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.381"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998952" all_ntt_prob="(0,0.874533,0.998952)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="0.4942"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03599.03599.2" start_scan="3599" end_scan="3599" precursor_neutral_mass="1609.0151" assumed_charge="2" index="461" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSVSGSGNVAQYAIEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00370|DHE4_ECOLI" protein_descr="NADP-specific glutamate dehydrogenase OS=Escherichia coli (strain K12) GN=gdhA" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="30" calc_neutral_pep_mass="1607.8157" massdiff="1.199" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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<search_score_summary> <parameter name="nss" value="0.9765"/> <parameter name="nrs" value="0.4991"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01580.01580.2" start_scan="1580" end_scan="1580" precursor_neutral_mass="1583.5627" assumed_charge="2" index="465" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLTTCNIPVPSDVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A799|PGK_ECOLI" protein_descr="Phosphoglycerate kinase OS=Escherichia coli (strain K12) GN=pgk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1583.8337" massdiff="-0.271" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LLTTCNIPVPSDVR"> <mod_aminoacid_mass position="5" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="415"/> <search_score name="nextscore" value="378"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.22"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6988" all_ntt_prob="(0.0000,0.0167,0.6988)"> <search_score_summary> <parameter name="fval" value="1.8610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.251878" all_ntt_prob="(0,0.00245856,0.251878)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02111.02111.2" start_scan="2111" end_scan="2111" precursor_neutral_mass="1576.6061" assumed_charge="2" index="466" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TVPMFNEALAELNK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1575.7967" massdiff="0.809" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="460"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9965" all_ntt_prob="(0.0000,0.6723,0.9965)"> <search_score_summary> <parameter name="fval" value="4.3770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.809"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.991334" all_ntt_prob="(0,0.451844,0.991334)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9898"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03796.03796.2" start_scan="3796" end_scan="3796" precursor_neutral_mass="1567.2242" assumed_charge="2" index="469" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGAKPMIVTGMLMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P69367|MDTH_ECOLI" protein_descr="Multidrug resistance protein mdtH OS=Escherichia coli (strain K12) GN=mdtH" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="26" calc_neutral_pep_mass="1566.8087" massdiff="0.415" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="FGAKPMIVTGMLM[147]R"> <mod_aminoacid_mass position="13" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="232"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.34"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0872" all_ntt_prob="(0.0000,0.0007,0.0872)"> <search_score_summary> <parameter name="fval" value="-0.6512"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.415"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0136736" all_ntt_prob="(0,0.000101643,0.0136736)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01388.01388.2" start_scan="1388" end_scan="1388" precursor_neutral_mass="1565.8395" assumed_charge="2" index="470" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYEDAETVTGVINGK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1565.7577" massdiff="0.082" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8621,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4826"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.082"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999756" all_ntt_prob="(0,0.968545,0.999756)"> <search_score_summary> <parameter name="nss" value="0.986"/> <parameter name="nrs" value="-0.3965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01885.01885.2" start_scan="1885" end_scan="1885" precursor_neutral_mass="1548.6795" assumed_charge="2" index="472" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GATVELADGVEGYLR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1548.7787" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.008"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9933" all_ntt_prob="(0.0000,0.5200,0.9933)"> <search_score_summary> <parameter name="fval" value="5.0844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999482" 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index="475" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAVTNPQNTLFAIK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1526.8097" massdiff="-0.090" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AVTNPQNTLFAIK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result 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massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" value="0.9889"/> <parameter name="nrs" value="0.2376"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02136.02136.2" start_scan="2136" end_scan="2136" precursor_neutral_mass="1513.6004" assumed_charge="2" index="480" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGIQAFEPVLIEGK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A8T7|RPOC_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta' OS=Escherichia coli (strain K12) GN=rpoC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1512.8547" massdiff="0.746" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0043"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6306,0.9957)"> <search_score_summary> <parameter name="fval" value="4.2146"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.746"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999553" all_ntt_prob="(0,0.942832,0.999553)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4529"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01358.01358.2" start_scan="1358" end_scan="1358" precursor_neutral_mass="1497.7533" assumed_charge="2" index="482" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ATLGEVGNAEHMLR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1496.7407" massdiff="1.013" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="280"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9540" all_ntt_prob="(0.0000,0.1317,0.9540)"> <search_score_summary> <parameter name="fval" value="3.0784"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.013"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.990679" all_ntt_prob="(0,0.437364,0.990679)"> <search_score_summary> <parameter name="nss" value="0.8044"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01842.01842.2" start_scan="1842" end_scan="1842" precursor_neutral_mass="1494.7173" assumed_charge="2" index="483" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.054"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995985" all_ntt_prob="(0,0.644487,0.995985)"> <search_score_summary> <parameter name="nss" value="0.7006"/> <parameter name="nrs" value="0.4988"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00890.00890.2" start_scan="890" end_scan="890" precursor_neutral_mass="1473.5847" assumed_charge="2" index="484" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1472.7737" massdiff="0.811" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6664,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3534"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.811"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994202" all_ntt_prob="(0,0.553103,0.994202)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.2" start_scan="2881" end_scan="2881" precursor_neutral_mass="1472.9615" assumed_charge="2" index="485" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QVGVPYIIVFLNK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1471.8437" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="C"/> <modification_info modified_peptide="Q[111]VGVPYIIVFLNK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9962" all_ntt_prob="(0.0000,0.6558,0.9962)"> <search_score_summary> <parameter name="fval" value="5.2702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999669" all_ntt_prob="(0,0.956425,0.999669)"> <search_score_summary> <parameter name="nss" value="0.9733"/> <parameter name="nrs" value="0.6612"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00932.00932.2" start_scan="932" end_scan="932" precursor_neutral_mass="1469.1905" assumed_charge="2" index="486" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SNVPALEACPQKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7S3|RS12_ECOLI" protein_descr="30S ribosomal protein S12 OS=Escherichia coli (strain K12) GN=rpsL" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1468.7457" massdiff="0.445" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SNVPALEACPQKR"> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="442"/> <search_score name="nextscore" value="289"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7930,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9672"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.445"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999795" all_ntt_prob="(0,0.97269,0.999795)"> <search_score_summary> <parameter name="nss" value="0.9608"/> <parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTIHTARPGIVIGK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1460.8827" massdiff="-0.124" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00095"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5869" all_ntt_prob="(0.0000,0.0103,0.5869)"> <search_score_summary> <parameter name="fval" value="1.5594"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.124"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.468152" all_ntt_prob="(0,0.00640667,0.468152)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02566.02566.2" start_scan="2566" end_scan="2566" precursor_neutral_mass="1459.0930" assumed_charge="2" index="490" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGGNSLLDLVVFGR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00077"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9959" all_ntt_prob="(0.0000,0.6422,0.9959)"> <search_score_summary> <parameter name="fval" value="4.2586"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999564" all_ntt_prob="(0,0.944268,0.999564)"> <search_score_summary> <parameter name="nss" value="0.9832"/> <parameter name="nrs" value="0.4481"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01476.01476.2" start_scan="1476" end_scan="1476" precursor_neutral_mass="1452.6781" assumed_charge="2" index="492" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AADMTGADIEAMTR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="26" calc_neutral_pep_mass="1451.6387" massdiff="1.039" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01716.01716.2" start_scan="1716" end_scan="1716" precursor_neutral_mass="1448.9297" assumed_charge="2" index="493" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ETRPAAPAASDKPR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P31462|MDTL_ECOLI" protein_descr="Multidrug resistance protein mdtL OS=Escherichia coli (strain K12) GN=mdtL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1447.7527" massdiff="1.177" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]TRPAAPAASDKPR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.899"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0465875" all_ntt_prob="(0,0.000363571,0.0465875)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01728.01728.2" start_scan="1728" end_scan="1728" precursor_neutral_mass="1429.9404" assumed_charge="2" index="496" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" all_ntt_prob="(0,0.0389148,0.8471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2265"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01812.01812.2" start_scan="1812" end_scan="1812" precursor_neutral_mass="1428.3888" assumed_charge="2" index="497" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="-0.357" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01435.01435.2" start_scan="1435" end_scan="1435" precursor_neutral_mass="1419.2207" assumed_charge="2" index="498" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVLEVAGVHNVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1418.8247" massdiff="0.396" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" index="499" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="1.148" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9016" all_ntt_prob="(0.0000,0.0628,0.9016)"> <search_score_summary> <parameter name="fval" value="2.5033"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.148"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.645628" all_ntt_prob="(0,0.0131487,0.645628)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3659"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01757.01757.2" start_scan="1757" end_scan="1757" precursor_neutral_mass="1414.7405" assumed_charge="2" index="500" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="WLVVDEVTQPTK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFF6|NUSA_ECOLI" protein_descr="Transcription elongation protein nusA OS=Escherichia coli (strain K12) GN=nusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1413.7507" massdiff="0.990" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.990"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01621.01621.2" start_scan="1621" end_scan="1621" precursor_neutral_mass="1414.2060" assumed_charge="2" index="501" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="507"/> <search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" assumed_charge="2" index="504" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MMTSYVIGQAMK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AEB2|DACA_ECOLI" protein_descr="D-alanyl-D-alanine carboxypeptidase dacA OS=Escherichia coli (strain K12) GN=dacA" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1406.6247" massdiff="0.227" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]M[147]TSYVIGQAM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="2" mass="147.0354"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0905" all_ntt_prob="(0.0000,0.0007,0.0905)"> <search_score_summary> <parameter name="fval" value="-0.6308"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.227"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0142344" all_ntt_prob="(0,0.000101643,0.0142344)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01985.01985.2" start_scan="1985" end_scan="1985" precursor_neutral_mass="1404.6944" assumed_charge="2" index="505" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVTLYLGAVAATVR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1403.8137" massdiff="0.881" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="307"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9803" all_ntt_prob="(0.0000,0.2663,0.9803)"> <search_score_summary> <parameter name="fval" value="2.9909"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.881"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997508" all_ntt_prob="(0,0.744879,0.997508)"> <search_score_summary> <parameter name="nss" value="0.9353"/> <parameter name="nrs" value="0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01764.01764.2" start_scan="1764" end_scan="1764" precursor_neutral_mass="1393.8373" assumed_charge="2" index="506" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KPQDLFDEFAGK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0AFG3|ODO1_ECOLI" 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num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="253"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0795" all_ntt_prob="(0.0000,0.0006,0.0795)"> <search_score_summary> <parameter name="fval" value="1.6355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.188948" all_ntt_prob="(0,0.00161681,0.188948)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0052"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.0000,0.4472,0.9910)"> <search_score_summary> <parameter name="fval" value="3.5959"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.440"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99961" all_ntt_prob="(0,0.949593,0.99961)"> <search_score_summary> <parameter name="nss" value="0.9553"/> <parameter name="nrs" value="1.2596"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9576,0.9997)"> <search_score_summary> <parameter name="fval" value="7.2415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.951"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99997" all_ntt_prob="(0,0.995638,0.99997)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01811.01811.2" start_scan="1811" end_scan="1811" precursor_neutral_mass="1350.5360" assumed_charge="2" index="510" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLSDVTLGQFAGK" peptide_prev_aa="K" peptide_next_aa="R" protein="sp|P0A862|TPX_ECOLI" protein_descr="Thiol peroxidase OS=Escherichia coli (strain K12) GN=tpx" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1349.6827" massdiff="0.853" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="302"/> <search_score name="nextscore" value="187"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0077"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9896" all_ntt_prob="(0.0000,0.4091,0.9896)"> <search_score_summary> <parameter name="fval" value="3.4740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.853"/> 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num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="552"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9694,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.334"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999112,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9897"/> <parameter 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0686" all_ntt_prob="(0.0000,0.0005,0.0686)"> <search_score_summary> <parameter name="fval" value="-0.2817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.164"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0161637" all_ntt_prob="(0,0.000111576,0.0161637)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.047"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9953" all_ntt_prob="(0.0000,0.6064,0.9953)"> <search_score_summary> <parameter name="fval" value="4.1259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.986"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99927" all_ntt_prob="(0,0.908704,0.99927)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01596.01596.2" start_scan="1596" end_scan="1596" precursor_neutral_mass="1305.5426" assumed_charge="2" index="523" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGVLTGLPDAYGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1304.6727" massdiff="0.870" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="181"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7655,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8096"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.870"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999877" all_ntt_prob="(0,0.983195,0.999877)"> <search_score_summary> <parameter name="nss" value="0.9895"/> <parameter name="nrs" value="0.991099"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02170.02170.2" start_scan="2170" end_scan="2170" precursor_neutral_mass="1303.1952" assumed_charge="2" index="525" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTLTAAITTVLAK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1297.7357" massdiff="1.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="517"/> <search_score name="nextscore" value="297"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9987" all_ntt_prob="(0.0000,0.8489,0.9987)"> <search_score_summary> <parameter name="fval" value="6.6005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999791" all_ntt_prob="(0,0.972209,0.999791)"> <search_score_summary> <parameter name="nss" value="0.9758"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01277.01277.2" start_scan="1277" end_scan="1277" precursor_neutral_mass="1290.8581" assumed_charge="2" index="527" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="1.185" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="146"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8141" all_ntt_prob="(0.0000,0.0310,0.8141)"> <search_score_summary> <parameter name="fval" value="2.0185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.185"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.640407" all_ntt_prob="(0,0.0128431,0.640407)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="531" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGSVVVLGYTDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1279.6407" massdiff="0.943" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="251"/> <search_score name="nextscore" value="187"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.057"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7535" all_ntt_prob="(0.0000,0.0218,0.7535)"> <search_score_summary> <parameter name="fval" value="1.1967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.943"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413687" all_ntt_prob="(0,0.00511772,0.413687)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.5149"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00979.00979.2" start_scan="979" end_scan="979" precursor_neutral_mass="1267.2140" assumed_charge="2" index="532" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LNIDQNPGTAPK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P0AA25|THIO_ECOLI" protein_descr="Thioredoxin-1 OS=Escherichia coli (strain K12) GN=trxA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1266.6567" massdiff="0.557" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7900,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9492"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.557"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" 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value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01422.01422.2" start_scan="1422" end_scan="1422" precursor_neutral_mass="1243.1095" assumed_charge="2" index="539" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAIVAEVSEVAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.428" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="461"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" precursor_neutral_mass="1238.7478" assumed_charge="2" index="541" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIASDCADGMTK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1238.5267" massdiff="0.221" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AIASDCADGMTK"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> 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value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999682" all_ntt_prob="(0,0.958586,0.999682)"> <search_score_summary> <parameter name="nss" value="0.9893"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01948.01948.2" start_scan="1948" end_scan="1948" precursor_neutral_mass="1225.8653" assumed_charge="2" index="543" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAIVAEVSEVAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="19" 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is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="536"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9641,0.9997)"> <search_score_summary> <parameter name="fval" value="7.5678"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.795"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999983" all_ntt_prob="(0,0.997943,0.999983)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.9968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01559.01559.2" start_scan="1559" end_scan="1559" precursor_neutral_mass="1213.5855" assumed_charge="2" index="547" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="-0.027" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="436"/> <search_score name="nextscore" value="237"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7258,0.9972)"> <search_score_summary> <parameter name="fval" value="6.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.027"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999825" all_ntt_prob="(0,0.977015,0.999825)"> <search_score_summary> <parameter name="nss" value="0.9477"/> <parameter name="nrs" 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name="nmc" value="0"/> <parameter name="massd" value="0.437"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999964" all_ntt_prob="(0,0.995141,0.999964)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="2.4868"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01428.01428.2" start_scan="1428" end_scan="1428" precursor_neutral_mass="1169.4402" assumed_charge="2" index="553" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QVIGQVAADLR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" 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all_ntt_prob="(0,0.432328,0.9905)"> <search_score_summary> <parameter name="nss" value="0.8913"/> <parameter name="nrs" value="0.4931"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01301.01301.2" start_scan="1301" end_scan="1301" precursor_neutral_mass="1164.2022" assumed_charge="2" index="554" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGTYVQIVAR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="20" calc_neutral_pep_mass="1163.6297" massdiff="0.573" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="299"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01696.01696.2" start_scan="1696" end_scan="1696" precursor_neutral_mass="1162.1754" assumed_charge="2" index="555" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGFTVELNGIR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1161.6137" massdiff="0.562" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="381"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.771"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999945" all_ntt_prob="(0,0.992121,0.999945)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.995799"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01289.01289.2" start_scan="1289" end_scan="1289" precursor_neutral_mass="1149.8838" assumed_charge="2" index="560" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="APVVVPAGVDVK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="496"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9680,0.9998)"> <search_score_summary> <parameter name="fval" value="7.8216"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999989" all_ntt_prob="(0,0.99818,0.999989)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.999099"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01025.01025.2" start_scan="1025" end_scan="1025" precursor_neutral_mass="1129.2092" assumed_charge="2" index="561" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLQEIAQTK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1128.6137" massdiff="0.595" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="331"/> <search_score name="nextscore" value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01049.01049.2" start_scan="1049" end_scan="1049" precursor_neutral_mass="1127.9299" assumed_charge="2" index="562" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGLIAGSGGGSPR" peptide_prev_aa="R" peptide_next_aa="F" protein="sp|P0A953|FABB_ECOLI" protein_descr="3-oxoacyl-[acyl-carrier-protein] synthase 1 OS=Escherichia coli (strain K12) GN=fabB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1126.6097" massdiff="1.320" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="276"/> <search_score name="nextscore" value="192"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.047"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8531" all_ntt_prob="(0.0000,0.0407,0.8531)"> <search_score_summary> <parameter name="fval" value="2.2001"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.320"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.889115" all_ntt_prob="(0,0.0553378,0.889115)"> <search_score_summary> <parameter name="nss" value="0.631"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01408.01408.2" start_scan="1408" end_scan="1408" precursor_neutral_mass="1115.3872" assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" value="4.5868"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.752"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999889" all_ntt_prob="(0,0.984949,0.999889)"> <search_score_summary> <parameter name="nss" value="0.97"/> <parameter name="nrs" value="1.2902"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01338.01338.2" start_scan="1338" end_scan="1338" precursor_neutral_mass="1113.3233" assumed_charge="2" index="565" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.716" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="571"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9164,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1549"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.716"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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assumed_charge="2" index="578" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVTAAVEELK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1029.5707" massdiff="0.829" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="276"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9054" all_ntt_prob="(0.0000,0.0653,0.9054)"> <search_score_summary> <parameter name="fval" value="1.8847"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<parameter name="massd" value="0.443"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999747" all_ntt_prob="(0,0.966551,0.999747)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9876"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04263.04263.1" start_scan="4263" end_scan="4263" precursor_neutral_mass="1022.4610" assumed_charge="1" index="580" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYGTGLLVSR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P14565-1|TRAI1_ECOLI" protein_descr="Isoform traI of Protein traI OS=Escherichia coli (strain K12) GN=traI" num_tot_proteins="2" num_matched_ions="8" 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.1157"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03149.03149.2" start_scan="3149" end_scan="3149" precursor_neutral_mass="976.0107" assumed_charge="2" index="582" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LADKTICR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P69829|PTSN_ECOLI" protein_descr="Nitrogen regulatory protein OS=Escherichia coli (strain K12) GN=ptsN" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="975.5167" massdiff="0.494" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="LADKTICR"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04291.04291.1" start_scan="4291" end_scan="4291" precursor_neutral_mass="964.5370" assumed_charge="1" index="583" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.091" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="133"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9005" all_ntt_prob="(0.0000,0.9030,0.9005)"> <search_score_summary> <parameter name="fval" value="1.3052"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.091"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.717083" all_ntt_prob="(0,0.722772,0.717083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01708.01708.2" start_scan="1708" end_scan="1708" precursor_neutral_mass="963.8814" assumed_charge="2" index="584" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TEFDVILK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="14" calc_neutral_pep_mass="963.5277" massdiff="0.354" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.22"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9857" all_ntt_prob="(0.0000,0.3351,0.9857)"> <search_score_summary> <parameter name="fval" value="3.2321"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.354"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.909115" all_ntt_prob="(0,0.0681527,0.909115)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02003.02003.3" start_scan="02003" end_scan="02003" precursor_neutral_mass="2015.1535" assumed_charge="3" index="371" retention_time_sec="2913.01"> <search_result> <search_hit hit_rank="1" peptide="FGVSAAAAVAVAAGPVEAAEEK" peptide_prev_aa="K" peptide_next_aa="T" protein="tr|C3SIB2|C3SIB2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2014.0370" massdiff="+1.1164" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.740"/> <search_score name="delta" value="0.331"/> <search_score name="dot_bias" value="0.183"/> <search_score name="precursor_mz_diff" value="0.372"/> <search_score name="hits_num" value="586"/> <search_score name="hits_mean" value="0.186"/> <search_score name="hits_stdev" value="0.071"/> <search_score name="fval" value="0.623"/> <search_score name="first_non_homolog" value="3"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="77958122"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="98"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6230"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.116"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9604"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01973.01973.3" start_scan="01973" end_scan="01973" precursor_neutral_mass="2015.1643" assumed_charge="3" index="372" retention_time_sec="2882.34"> <search_result> <search_hit hit_rank="1" peptide="FGVSAAAAVAVAAGPVEAAEEK" peptide_prev_aa="K" peptide_next_aa="T" protein="tr|C3SIB2|C3SIB2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2014.0370" massdiff="+1.1272" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.871"/> <search_score name="delta" value="0.447"/> <search_score name="dot_bias" value="0.173"/> <search_score name="precursor_mz_diff" value="0.376"/> <search_score name="hits_num" value="586"/> <search_score name="hits_mean" value="0.169"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.728"/> <search_score name="first_non_homolog" value="3"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="77958122"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="98"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7280"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.127"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9856"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02063.02063.2" start_scan="02063" end_scan="02063" precursor_neutral_mass="1343.8711" assumed_charge="2" index="374" retention_time_sec="2982.88"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="tr|Q5UES8|Q5UES8_ECOLX" num_tot_proteins="1" 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value="0.7500"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.085"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9992"/> <parameter name="nrs" value="1.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00889.00889.2" start_scan="00889" end_scan="00889" precursor_neutral_mass="1348.5296" assumed_charge="2" index="376" retention_time_sec="1611.14"> <search_result> <search_hit hit_rank="1" peptide="QSVDQPVQTGYK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SL97|C3SL97_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1348.6623" massdiff="-0.1327" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.854"/> <search_score name="delta" value="0.443"/> <search_score name="dot_bias" value="0.246"/> <search_score name="precursor_mz_diff" value="-0.066"/> <search_score name="hits_num" value="575"/> <search_score name="hits_mean" value="0.163"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.720"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="218567454"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9523" all_ntt_prob="(0.0000,0.9528,0.9523)"> <search_score_summary> <parameter name="fval" value="0.7200"/> <parameter name="ntt" 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<search_score name="dot" value="0.876"/> <search_score name="delta" value="0.386"/> <search_score name="dot_bias" value="0.198"/> <search_score name="precursor_mz_diff" value="0.476"/> <search_score name="hits_num" value="537"/> <search_score name="hits_mean" value="0.172"/> <search_score name="hits_stdev" value="0.081"/> <search_score name="fval" value="0.702"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="42157875"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7020"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02287.02287.3" start_scan="02287" end_scan="02287" precursor_neutral_mass="2258.8613" assumed_charge="3" index="559" retention_time_sec="3245.39"> <search_result> <search_hit hit_rank="1" peptide="SELEAFEVALENVRPTVEVK" peptide_prev_aa="K" peptide_next_aa="S" protein="tr|C3SQS2|C3SQS2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2258.1794" massdiff="+0.6820" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.770"/> <search_score name="delta" value="0.351"/> <search_score name="dot_bias" value="0.220"/> <search_score name="precursor_mz_diff" value="0.227"/> <search_score name="hits_num" value="502"/> <search_score name="hits_mean" value="0.187"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01928.01928.2" start_scan="01928" end_scan="01928" precursor_neutral_mass="1505.9090" assumed_charge="2" index="560" retention_time_sec="2827.20"> <search_result> <search_hit hit_rank="1" peptide="MQLNSTEISELIK" peptide_prev_aa="-" peptide_next_aa="Q" protein="tr|C3SL97|C3SL97_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1504.7807" massdiff="+1.1283" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.850"/> <search_score name="delta" value="0.474"/> <search_score name="dot_bias" value="0.181"/> <search_score name="precursor_mz_diff" value="0.564"/> <search_score name="hits_num" value="502"/> <search_score name="hits_mean" value="0.143"/> <search_score name="hits_stdev" value="0.061"/> <search_score name="fval" value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01931.01931.2" start_scan="01931" end_scan="01931" precursor_neutral_mass="1505.9481" assumed_charge="2" index="561" retention_time_sec="2835.04"> <search_result> <search_hit hit_rank="1" peptide="MQLNSTEISELIK" peptide_prev_aa="-" peptide_next_aa="Q" protein="tr|C3SL97|C3SL97_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1504.7807" massdiff="+1.1674" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.736"/> <search_score name="delta" value="0.379"/> <search_score name="dot_bias" value="0.182"/> <search_score name="precursor_mz_diff" value="0.584"/> <search_score name="hits_num" value="502"/> <search_score name="hits_mean" value="0.151"/> <search_score name="hits_stdev" value="0.063"/> <search_score name="fval" value="0.648"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9546" all_ntt_prob="(0.0000,0.9551,0.9546)"> <search_score_summary> <parameter name="fval" value="0.6480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.167"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.987646" all_ntt_prob="(0,0.987787,0.987646)"> <search_score_summary> <parameter name="nss" value="0.7465"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02255.02255.3" start_scan="02255" end_scan="02255" precursor_neutral_mass="2259.4643" assumed_charge="3" index="562" retention_time_sec="3206.20"> <search_result> <search_hit hit_rank="1" peptide="SELEAFEVALENVRPTVEVK" peptide_prev_aa="K" peptide_next_aa="S" protein="tr|C3SQS2|C3SQS2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2258.1794" massdiff="+1.2849" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.891"/> <search_score name="delta" value="0.472"/> <search_score name="dot_bias" value="0.213"/> <search_score name="precursor_mz_diff" value="0.428"/> <search_score name="hits_num" value="511"/> <search_score name="hits_mean" value="0.147"/> <search_score name="hits_stdev" value="0.074"/> <search_score name="fval" value="0.747"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.285"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9946"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02102.02102.2" start_scan="02102" end_scan="02102" precursor_neutral_mass="1686.4005" assumed_charge="2" index="724" retention_time_sec="3023.62"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="tr|C3SQS7|C3SQS7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1684.8746" massdiff="+1.5259" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.678"/> <search_score name="delta" value="0.258"/> <search_score name="dot_bias" value="0.247"/> <search_score name="precursor_mz_diff" value="0.763"/> <search_score name="hits_num" value="405"/> <search_score name="hits_mean" value="0.141"/> <search_score name="hits_stdev" value="0.058"/> <search_score name="fval" value="0.559"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="180332000"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6397" all_ntt_prob="(0.0000,0.6423,0.6397)"> <search_score_summary> <parameter name="fval" value="0.5590"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.526"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.289657" all_ntt_prob="(0,0.291987,0.289657)"> <search_score_summary> <parameter name="nss" value="0.2066"/> <parameter name="nrs" value="0.0546"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01735.01735.2" start_scan="01735" end_scan="01735" precursor_neutral_mass="1686.7248" assumed_charge="2" index="725" retention_time_sec="2616.15"> <search_result> <search_hit hit_rank="1" peptide="AAAFEGELIPASQIDR" peptide_prev_aa="K" peptide_next_aa="L" protein="tr|C3SIB7|C3SIB7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1686.8577" massdiff="-0.1328" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.732"/> <search_score name="delta" value="0.318"/> <search_score name="dot_bias" value="0.291"/> <search_score name="precursor_mz_diff" value="-0.066"/> <search_score name="hits_num" value="405"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.071"/> <search_score name="fval" value="0.613"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="169751"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8220" all_ntt_prob="(0.0000,0.8237,0.8220)"> <search_score_summary> <parameter name="fval" value="0.6130"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.133"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.698506" all_ntt_prob="(0,0.700956,0.698506)"> <search_score_summary> <parameter name="nss" value="0.2143"/> <parameter name="nrs" value="0.8152"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01754.01754.2" start_scan="01754" end_scan="01754" precursor_neutral_mass="1687.1656" assumed_charge="2" index="726" retention_time_sec="2633.50"> <search_result> <search_hit hit_rank="1" peptide="AAAFEGELIPASQIDR" peptide_prev_aa="K" peptide_next_aa="L" protein="tr|C3SIB7|C3SIB7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1686.8577" massdiff="+0.3080" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.717"/> <search_score name="delta" value="0.269"/> <search_score name="dot_bias" value="0.277"/> <search_score name="precursor_mz_diff" value="0.154"/> <search_score name="hits_num" value="405"/> <search_score name="hits_mean" value="0.180"/> <search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.580"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="169751"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8976" all_ntt_prob="(0.0000,0.8986,0.8976)"> <search_score_summary> <parameter name="fval" value="0.5800"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.308"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.94831" all_ntt_prob="(0,0.948843,0.94831)"> <search_score_summary> <parameter name="nss" value="0.5735"/> <parameter name="nrs" value="0.7396"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> 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<search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9998,0.9994)"> <search_score_summary> <parameter name="fval" value="0.7110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-2.404"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997363" all_ntt_prob="(0,0.99912,0.997363)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02329.02329.4" start_scan="02329" end_scan="02329" precursor_neutral_mass="3669.9772" assumed_charge="4" index="756" retention_time_sec="3291.28"> <search_result> <search_hit hit_rank="1" peptide="LAEVTGFPCVPAEDLIEATSDCGAYVMVHGALKR" peptide_prev_aa="K" peptide_next_aa="L" protein="tr|E2QK76|E2QK76_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="3675.7735" massdiff="-5.7962" num_tol_term="2" num_missed_cleavages="1"> <modification_info modified_peptide="LAEVTGFPC[160]VPAEDLIEATSDC[160]GAYVMVHGALKR"> <mod_aminoacid_mass position="9" mass="160.0307"/> <mod_aminoacid_mass position="22" mass="160.0307"/> </modification_info> <search_score name="dot" value="0.651"/> <search_score name="delta" value="0.293"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="-1.449"/> <search_score name="hits_num" value="312"/> <search_score name="hits_mean" value="0.157"/> <search_score name="hits_stdev" value="0.073"/> <search_score name="fval" value="0.571"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="4"/> <search_score name="lib_file_offset" value="148468978"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="12"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,1.0000,0.9998)"> <search_score_summary> <parameter name="fval" value="0.5710"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-5.796"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998623" all_ntt_prob="(0,0.999993,0.998623)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01904.01904.1" start_scan="01904" end_scan="01904" precursor_neutral_mass="928.7217" assumed_charge="1" index="757" retention_time_sec="2802.97"> <search_result> <search_hit hit_rank="1" peptide="PFVDGGVIK" peptide_prev_aa="V" peptide_next_aa="A" protein="tr|C3SSG2|C3SSG2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="930.5174" massdiff="-1.7957" num_tol_term="1" num_missed_cleavages="0"> <search_score name="dot" value="0.834"/> <search_score name="delta" value="0.437"/> <search_score name="dot_bias" value="0.166"/> <search_score name="precursor_mz_diff" value="-1.796"/> <search_score name="hits_num" value="289"/> <search_score name="hits_mean" value="0.123"/> <search_score name="hits_stdev" value="0.077"/> <search_score name="fval" value="0.710"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="1"/> <search_score name="lib_file_offset" value="204117518"/> <search_score name="lib_probability" value="0.9999"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="12"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9998,0.9994)"> <search_score_summary> <parameter name="fval" value="0.7100"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-1.796"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998623" all_ntt_prob="(0,0.998623,0.99588)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> </msms_run_summary> </msms_pipeline_analysis> /default:msms_pipeline_analysis/default:msms_run_summary/default:spectrum_query/default:search_result/default:search_hit/@protein default http://regis-web.systemsbiology.net/pepXML xsi http://www.w3.org/2001/XMLSchema-instance net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecombine_IDs_and_properties_rawprot_list1Gravy_score1ID1MW1pI1Prot_seq1out_raw00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity prot_list 1 text/plain java.lang.String true ID 1 text/plain java.lang.String true MW 1 text/plain java.lang.String true Gravy_score 1 text/plain java.lang.String true Prot_seq 1 text/plain java.lang.String true pI 1 text/plain java.lang.String true out_raw 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeread_FASTA_filefileurl0filecontents00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity fileurl 0 'text/plain' java.lang.String true encoding 0 'text/plain' java.lang.String true filecontents 0 'text/plain' 0 workflow net.sourceforge.taverna.scuflworkers.io.TextFileReader net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokegenerate_figuresDataSetRaw0DataSetSup0DataSetPel0PepsSup1PepsPel1bin0PepsRaw1out_name100out00net.sf.taverna.t2.activitiesrshell-activity1.4net.sf.taverna.t2.activities.rshell.RshellActivity DataSetRaw 0 false DataSetPel 0 false DataSetSup 0 false PepsRaw 1 false PepsPel 1 false PepsSup 1 false bin 0 false out_name1 0 0 out 0 0 false localhost 6311 false false DataSetRaw TEXT_FILE DataSetPel TEXT_FILE DataSetSup TEXT_FILE PepsRaw STRING_LIST PepsPel STRING_LIST PepsSup STRING_LIST bin STRING out_name1 STRING out STRING net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeread_pellet_filefileurl0filecontents00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity fileurl 0 'text/plain' java.lang.String true encoding 0 'text/plain' java.lang.String true filecontents 0 'text/plain' 0 workflow net.sourceforge.taverna.scuflworkers.io.TextFileReader net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeread_supernatant_filefileurl0filecontents00net.sf.taverna.t2.activitieslocalworker-activity1.4net.sf.taverna.t2.activities.localworker.LocalworkerActivity fileurl 0 'text/plain' java.lang.String true encoding 0 'text/plain' java.lang.String true filecontents 0 'text/plain' 0 workflow net.sourceforge.taverna.scuflworkers.io.TextFileReader net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_protein_IDs_pelletxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <msms_pipeline_analysis xmlns="http://regis-web.systemsbiology.net/pepXML" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" date="2012-06-11T14:25:15" xsi:schemaLocation="http://regis-web.systemsbiology.net/pepXML 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filename="e:/Taverna/data/Test/Ecoli.tandem.interact.pep.xml" directory=""> <inputfile name="E:\Taverna\data\Test\Ecoli.tandem.pep.xml"/> </interact_summary> </analysis_summary> <msms_run_summary base_name="E:\Taverna\data\Test\Ecoli" search_engine="X! Tandem (k-score)" msManufacturer="Bruker Daltonics" msModel="esquire" msIonization="ESI" msMassAnalyzer="Quadrupole Ion Trap" msDetector="UNKNOWN" raw_data_type="raw" raw_data=".mzXML"> <sample_enzyme name="trypsin"> <specificity cut="KR" no_cut="P" sense="C"/> </sample_enzyme> <search_summary base_name="E:\Taverna\data\Test\Ecoli" search_engine="X! Tandem (k-score)" precursor_mass_type="monoisotopic" fragment_mass_type="monoisotopic" search_id="1"> <search_database local_path="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta" type="AA"/> <enzymatic_search_constraint enzyme="trypsin" max_num_internal_cleavages="2" min_number_termini="2"/> <aminoacid_modification aminoacid="C" massdiff="57.0215" mass="160.0306" variable="N"/> <aminoacid_modification aminoacid="C" massdiff="-17.0265" mass="143.0041" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="E" massdiff="-18.0106" mass="111.0320" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="M" massdiff="15.9949" mass="147.0354" variable="Y"/> <aminoacid_modification aminoacid="Q" massdiff="-17.0265" mass="111.0321" variable="Y" symbol="^"/> <!--X! 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modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="234"/> <search_score name="nextscore" value="213"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0501" all_ntt_prob="(0.0000,0.0004,0.0501)"> <search_score_summary> <parameter name="fval" value="-0.9458"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01625.01625.2" start_scan="1625" end_scan="1625" precursor_neutral_mass="1152.2677" assumed_charge="2" index="36" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="-0.277" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" end_scan="899" precursor_neutral_mass="1158.7499" assumed_charge="2" index="37" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="283"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9797" all_ntt_prob="(0.0000,0.2612,0.9797)"> <search_score_summary> <parameter name="fval" value="2.9717"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.91549" all_ntt_prob="(0,0.0735236,0.91549)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4879"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01690.01690.2" start_scan="1690" end_scan="1690" precursor_neutral_mass="1161.5443" assumed_charge="2" index="38" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGFTVELNGIR" peptide_prev_aa="K" peptide_next_aa="A" 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position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9986" all_ntt_prob="(0.0000,0.8425,0.9986)"> <search_score_summary> <parameter name="fval" value="7.1331"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9998" all_ntt_prob="(0,0.974078,0.9998)"> <search_score_summary> <parameter name="nss" value="0.8784"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00920.00920.2" start_scan="920" end_scan="920" precursor_neutral_mass="1239.1063" assumed_charge="2" index="51" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.554" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7880,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.554"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999798" all_ntt_prob="(0,0.973586,0.999798)"> <search_score_summary> <parameter name="nss" value="0.9858"/> <parameter name="nrs" value="0.4897"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00913.00913.2" start_scan="913" end_scan="913" precursor_neutral_mass="1239.2481" assumed_charge="2" index="52" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.695" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="352"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.069"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9897" all_ntt_prob="(0.0000,0.4119,0.9897)"> <search_score_summary> <parameter name="fval" value="3.4831"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.695"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998967" all_ntt_prob="(0,0.875801,0.998967)"> <search_score_summary> <parameter name="nss" value="0.9883"/> <parameter name="nrs" value="0.498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01517.01517.2" start_scan="1517" end_scan="1517" precursor_neutral_mass="1243.0271" assumed_charge="2" index="53" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.345" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="165"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1113" all_ntt_prob="(0.0000,0.0009,0.1113)"> <search_score_summary> <parameter name="fval" value="-0.5156"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.345"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0189065" all_ntt_prob="(0,0.000138591,0.0189065)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0749"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01481.01481.2" start_scan="1481" end_scan="1481" precursor_neutral_mass="1243.6625" assumed_charge="2" index="54" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" all_ntt_prob="(0,0.973669,0.999802)"> <search_score_summary> <parameter name="nss" value="0.8985"/> <parameter name="nrs" value="0.974499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01110.01110.2" start_scan="1110" end_scan="1110" precursor_neutral_mass="1249.3756" assumed_charge="2" index="56" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HPVTPWGVQTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="20" calc_neutral_pep_mass="1248.6617" massdiff="0.714" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01114.01114.3" start_scan="1114" end_scan="1114" precursor_neutral_mass="1262.8771" assumed_charge="3" index="57" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAIVPAANVPKK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P24554|RADA_ECOLI" protein_descr="DNA repair protein radA OS=Escherichia coli (strain K12) GN=radA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="44" calc_neutral_pep_mass="1262.7827" massdiff="0.094" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" value="3.0700"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.729"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.889547" all_ntt_prob="(0,0.0554702,0.889547)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02038.02038.2" start_scan="2038" end_scan="2038" precursor_neutral_mass="1267.8069" assumed_charge="2" index="59" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain 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probability="0.0413526" all_ntt_prob="(0,0.000310901,0.0413526)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.1605"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01734.01734.2" start_scan="1734" end_scan="1734" precursor_neutral_mass="1276.2168" assumed_charge="2" index="60" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDLFNVNAGIVK" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1275.6827" massdiff="0.534" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="405"/> <search_score 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value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01002.01002.2" start_scan="1002" end_scan="1002" precursor_neutral_mass="1284.0191" assumed_charge="2" index="61" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGEVPADVAAQAR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0AF93|YJGF_ECOLI" protein_descr="UPF0076 protein yjgF OS=Escherichia coli (strain K12) GN=yjgF" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1283.6467" massdiff="0.372" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02290.02290.2" start_scan="2290" end_scan="2290" precursor_neutral_mass="1312.1478" assumed_charge="2" index="67" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVTDELVIALVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69441|KAD_ECOLI" protein_descr="Adenylate kinase OS=Escherichia coli (strain K12) GN=adk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1311.8017" massdiff="0.346" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> 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<search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.588"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99947" all_ntt_prob="(0,0.931787,0.99947)"> <search_score_summary> <parameter name="nss" value="0.9893"/> <parameter name="nrs" value="0.4934"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01354.01354.2" start_scan="1354" end_scan="1354" precursor_neutral_mass="1325.5898" assumed_charge="2" index="69" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITQGDDLAPGVLK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A8V2|RPOB_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta OS=Escherichia coli (strain K12) GN=rpoB" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1325.7187" massdiff="-0.129" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="209"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4319" all_ntt_prob="(0.0000,0.0055,0.4319)"> <search_score_summary> <parameter name="fval" value="1.1892"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.129"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0993637" 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9929" all_ntt_prob="(0.0000,0.5058,0.9929)"> <search_score_summary> <parameter name="fval" value="3.7842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.845"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999735" all_ntt_prob="(0,0.965069,0.999735)"> <search_score_summary> <parameter name="nss" value="0.9035"/> <parameter name="nrs" value="1.496"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0976" all_ntt_prob="(0.0000,0.0008,0.0976)"> <search_score_summary> <parameter name="fval" value="-0.5890"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.911"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0154528" all_ntt_prob="(0,0.000116174,0.0154528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02081.02081.2" start_scan="2081" end_scan="2081" precursor_neutral_mass="1343.7314" assumed_charge="2" index="76" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.946" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="553"/> <search_score name="nextscore" value="369"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9011,0.9992)"> <search_score_summary> <parameter name="fval" value="5.9212"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.946"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996924,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01591.01591.2" start_scan="1591" end_scan="1591" precursor_neutral_mass="1365.8132" assumed_charge="2" index="77" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAMIGDPTGALTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide 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analysis="interprophet"> <interprophet_result probability="0.999685" all_ntt_prob="(0,0.9587,0.999685)"> <search_score_summary> <parameter name="nss" value="0.9229"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02009.02009.2" start_scan="2009" end_scan="2009" precursor_neutral_mass="1376.5206" assumed_charge="2" index="78" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="-0.122" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" 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<search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" 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value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF 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<interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" 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num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" assumed_charge="2" index="108" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQLVGDDLFVTNTK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="26" calc_neutral_pep_mass="1561.8347" massdiff="1.028" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8052" all_ntt_prob="(0.0000,0.0293,0.8052)"> <search_score_summary> <parameter name="fval" value="1.9817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1582.8566" massdiff="0.010" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.4e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8934,0.9991)"> <search_score_summary> <parameter name="fval" value="5.8196"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.010"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9999" all_ntt_prob="(0,0.986928,0.9999)"> <search_score_summary> <parameter name="nss" value="0.9491"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01940.01940.2" start_scan="1940" end_scan="1940" precursor_neutral_mass="1583.6924" assumed_charge="2" index="115" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAQGTDVSFGSFGLK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ADY7|RL16_ECOLI" protein_descr="50S ribosomal protein L16 OS=Escherichia coli (strain K12) GN=rplP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1582.7987" massdiff="0.894" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9500" all_ntt_prob="(0.0000,0.1220,0.9500)"> <search_score_summary> <parameter name="fval" value="2.3270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.894"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.885516" all_ntt_prob="(0,0.0535384,0.885516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03659.03659.3" start_scan="3659" end_scan="3659" precursor_neutral_mass="1590.6650" assumed_charge="3" index="116" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NPDAQQAIFQEMAK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P43329|HRPA_ECOLI" protein_descr="ATP-dependent RNA helicase hrpA OS=Escherichia coli (strain K12) GN=hrpA" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="52" calc_neutral_pep_mass="1589.7507" massdiff="0.914" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="394"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3307" all_ntt_prob="(0.0048,0.0140,0.3307)"> <search_score_summary> <parameter name="fval" value="0.9934"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.914"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0669051" all_ntt_prob="(0.000699434,0.00205626,0.0669051)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02309.02309.2" start_scan="2309" end_scan="2309" precursor_neutral_mass="1598.2781" assumed_charge="2" index="117" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IATDPFVGNLTFFR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1596.8297" massdiff="1.448" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="476"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.039"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8239,0.9984)"> <search_score_summary> <parameter name="fval" value="6.3422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.448"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999836" all_ntt_prob="(0,0.978564,0.999836)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.497"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00784.00784.3" start_scan="784" end_scan="784" precursor_neutral_mass="1601.2434" assumed_charge="3" index="119" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGKK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="60" calc_neutral_pep_mass="1600.8687" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="393"/> <search_score name="nextscore" value="275"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9158" all_ntt_prob="(0.0954,0.2386,0.9158)"> <search_score_summary> <parameter name="fval" value="4.1164"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.910932" all_ntt_prob="(0.0902203,0.227602,0.910932)"> <search_score_summary> <parameter name="nss" value="0.5561"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02443.02443.2" start_scan="2443" end_scan="2443" precursor_neutral_mass="1603.3818" assumed_charge="2" index="120" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISLLDAFGAANDVLK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A9A6|FTSZ_ECOLI" protein_descr="Cell division protein ftsZ OS=Escherichia coli (strain K12) GN=ftsZ" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1602.8617" massdiff="0.520" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="216"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6662,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.520"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.975708" all_ntt_prob="(0,0.224582,0.975708)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01046.01046.2" start_scan="1046" end_scan="1046" precursor_neutral_mass="1633.9151" assumed_charge="2" index="122" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESAPAAAAPAAQPALAAR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="34" calc_neutral_pep_mass="1632.8587" massdiff="1.056" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="421"/> <search_score name="nextscore" value="258"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" 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massdiff="1.193" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="392"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9875" all_ntt_prob="(0.0000,0.3663,0.9875)"> <search_score_summary> <parameter name="fval" value="4.1364"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.193"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997911" all_ntt_prob="(0,0.777524,0.997911)"> <search_score_summary> <parameter name="nss" 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</modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1861.9537" massdiff="0.249" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0636" all_ntt_prob="(0.0007,0.0020,0.0636)"> <search_score_summary> <parameter name="fval" value="2.5131"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.249"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.3" start_scan="1350" end_scan="1350" precursor_neutral_mass="2122.3963" assumed_charge="3" index="167" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GEILGGMAAVEQPEKPAAQPK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="41" tot_num_ions="80" calc_neutral_pep_mass="2120.0937" massdiff="2.303" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2691" all_ntt_prob="(0.0036,0.0105,0.2691)"> <search_score_summary> <parameter name="fval" value="0.9943"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.303"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0507847" all_ntt_prob="(0.000524751,0.00153963,0.0507847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0018"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01938.01938.3" start_scan="1938" end_scan="1938" precursor_neutral_mass="2194.0997" assumed_charge="3" index="170" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNEIETYMDGVHLICTTAK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P0A9N4|PFLA_ECOLI" protein_descr="Pyruvate formate-lyase 1-activating enzyme OS=Escherichia coli (strain K12) GN=pflA" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="96" calc_neutral_pep_mass="2505.2067" massdiff="1.996" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="285"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1473" all_ntt_prob="(0.0017,0.0049,0.1473)"> <search_score_summary> <parameter name="fval" value="0.5280"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.996"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244553" all_ntt_prob="(0.000247059,0.000714067,0.0244553)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02288.02288.3" start_scan="2288" end_scan="2288" precursor_neutral_mass="2541.6469" assumed_charge="3" index="186" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIAYDTLVMALGSTSNDFNTPGVK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P00393|DHNA_ECOLI" protein_descr="NADH dehydrogenase OS=Escherichia coli (strain K12) GN=ndh" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="92" calc_neutral_pep_mass="2541.2787" massdiff="0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1499" all_ntt_prob="(0.0017,0.0051,0.1499)"> <search_score_summary> <parameter name="fval" value="0.5408"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0249504" all_ntt_prob="(0.000247059,0.000743341,0.0249504)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03859.03859.3" start_scan="3859" end_scan="3859" precursor_neutral_mass="2959.1409" assumed_charge="3" index="192" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATPDELAPFAKADGSMGPNVTAVSGYVR" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0184902" all_ntt_prob="(0.000188863,0.000538639,0.0184902)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03759.03759.3" start_scan="3759" end_scan="3759" precursor_neutral_mass="2729.9031" assumed_charge="3" index="193" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AMTVAVIIAGLLPILWGTGAGSEVMSR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P38054|CUSA_ECOLI" protein_descr="Cation efflux system protein cusA OS=Escherichia coli (strain K12) GN=cusA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="104" calc_neutral_pep_mass="2728.4657" massdiff="1.437" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AM[147]TVAVIIAGLLPILWGTGAGSEVMSR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="329"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0704" all_ntt_prob="(0.0007,0.0022,0.0704)"> <search_score_summary> <parameter name="fval" value="-0.1351"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.437"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="291"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1423" all_ntt_prob="(0.0016,0.0048,0.1423)"> <search_score_summary> <parameter name="fval" value="0.3266"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.299"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0235102" all_ntt_prob="(0.000232506,0.000699434,0.0235102)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0667" all_ntt_prob="(0.0007,0.0021,0.0667)"> <search_score_summary> <parameter name="fval" value="0.4854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.418"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0102646" all_ntt_prob="(0.000101643,0.000305295,0.0102646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03879.03879.3" start_scan="3879" end_scan="3879" precursor_neutral_mass="1979.3631" assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1925.9667" massdiff="0.717" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <modification_info modified_peptide="AQYDRVM[147]EELYPRLK"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="351"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2356" all_ntt_prob="(0.0030,0.0088,0.2356)"> <search_score_summary> <parameter name="fval" value="2.8181"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.717"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00733.00733.3" start_scan="733" end_scan="733" precursor_neutral_mass="1796.1121" assumed_charge="3" index="234" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="37" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="1.163" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00752.00752.3" start_scan="752" end_scan="752" precursor_neutral_mass="1795.5034" assumed_charge="3" index="235" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="0.555" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01514.01514.2" start_scan="1514" end_scan="1514" precursor_neutral_mass="1774.0746" assumed_charge="2" index="238" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVSVPGMPVTLLNMSK" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P39220|YABP_ECOLI" protein_descr="Putative uncharacterized protein yabP OS=Escherichia coli (strain K12) GN=yabP" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="30" calc_neutral_pep_mass="1773.9367" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="KVSVPGM[147]PVTLLNM[147]SK"> <mod_aminoacid_mass position="7" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="199"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01322.01322.2" start_scan="1322" end_scan="1322" precursor_neutral_mass="1746.9547" assumed_charge="2" index="241" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQEQTMLNVADNSGAR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0ADY3|RL14_ECOLI" protein_descr="50S ribosomal protein L14 OS=Escherichia coli (strain K12) GN=rplN" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1745.8367" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0056"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" precursor_neutral_mass="1615.3095" assumed_charge="2" index="257" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.486" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9942" all_ntt_prob="(0.0000,0.5554,0.9942)"> <search_score_summary> <parameter name="fval" value="4.8412"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.486"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999331" all_ntt_prob="(0,0.915882,0.999331)"> <search_score_summary> <parameter name="nss" value="0.9413"/> <parameter name="nrs" value="0.4914"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02150.02150.2" start_scan="2150" end_scan="2150" precursor_neutral_mass="1605.3076" assumed_charge="2" index="258" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNQIGSLTETLAAIK" peptide_prev_aa="K" peptide_next_aa="M" 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</analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999933" all_ntt_prob="(0,0.990988,0.999933)"> <search_score_summary> <parameter name="nss" value="0.9878"/> <parameter name="nrs" value="0.9299"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04168.04168.2" start_scan="4168" end_scan="4168" precursor_neutral_mass="1604.0711" assumed_charge="2" index="259" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SADLISIGPMLQGMR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A9M8|PTA_ECOLI" protein_descr="Phosphate acetyltransferase OS=Escherichia coli (strain K12) GN=pta" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="28" calc_neutral_pep_mass="1603.8057" massdiff="0.265" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SADLISIGPM[147]LQGMR"> <mod_aminoacid_mass position="10" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.93"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0770" all_ntt_prob="(0.0000,0.0006,0.0770)"> <search_score_summary> <parameter name="fval" value="-0.7185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.265"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03332.03332.3" start_scan="3332" end_scan="3332" precursor_neutral_mass="1576.6472" assumed_charge="3" index="261" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYFTFLMPDSLTR" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76464|YFAS_ECOLI" protein_descr="Putative UPF0192 protein yfaS OS=Escherichia coli (strain K12) GN=yfaS" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="48" calc_neutral_pep_mass="1576.7597" massdiff="-0.113" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AYFTFLM[147]PDSLTR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="359"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2212" all_ntt_prob="(0.0027,0.0081,0.2212)"> <search_score_summary> <parameter name="fval" value="1.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0395857" all_ntt_prob="(0.000392724,0.00118365,0.0395857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04318.04318.2" start_scan="4318" end_scan="4318" precursor_neutral_mass="1562.4659" assumed_charge="2" index="264" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLYAFDPALEGLR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="26" calc_neutral_pep_mass="1562.8097" massdiff="-0.344" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> 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<search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9960" all_ntt_prob="(0.0000,0.6467,0.9960)"> <search_score_summary> <parameter name="fval" value="4.2758"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.982345" all_ntt_prob="(0,0.290287,0.982345)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4835"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01920.01920.2" start_scan="1920" end_scan="1920" precursor_neutral_mass="1515.4569" assumed_charge="2" index="272" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGPLAGYPVVDMGIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1514.7917" massdiff="0.665" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="358"/> <search_score name="nextscore" value="212"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7243,0.9972)"> <search_score_summary> <parameter name="fval" value="4.6033"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.665"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999566" all_ntt_prob="(0,0.94436,0.999566)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02141.02141.2" start_scan="2141" end_scan="2141" precursor_neutral_mass="1513.9488" assumed_charge="2" index="273" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGIQAFEPVLIEGK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A8T7|RPOC_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta' OS=Escherichia coli (strain K12) GN=rpoC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1512.8547" massdiff="1.094" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="250"/> <search_score name="nextscore" value="143"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9529" all_ntt_prob="(0.0000,0.1288,0.9529)"> <search_score_summary> <parameter name="fval" value="3.0599"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994" all_ntt_prob="(0,0.547645,0.994)"> <search_score_summary> <parameter name="nss" value="0.9212"/> <parameter name="nrs" value="0.4957"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02260.02260.2" start_scan="2260" end_scan="2260" precursor_neutral_mass="1512.6423" assumed_charge="2" index="274" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLPIPVVITVYADR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1511.8707" massdiff="0.772" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="433"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00043"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9319,0.9995)"> <search_score_summary> <parameter name="fval" value="6.4524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.772"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.992833,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9896"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00828.00828.2" start_scan="828" end_scan="828" precursor_neutral_mass="1505.8950" assumed_charge="2" index="277" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VINSGQVCNCAER" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P25553|ALDA_ECOLI" protein_descr="Lactaldehyde dehydrogenase OS=Escherichia coli (strain K12) GN=aldA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1505.6717" massdiff="0.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VINSGQVCNCAER"> <mod_aminoacid_mass position="8" mass="160.0306"/> <mod_aminoacid_mass position="10" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="415"/> <search_score name="nextscore" value="199"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9363,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5547"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999923" all_ntt_prob="(0,0.989593,0.999923)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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</search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0649748" all_ntt_prob="(0,0.000509436,0.0649748)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01308.01308.2" start_scan="1308" end_scan="1308" precursor_neutral_mass="1463.5334" assumed_charge="2" index="283" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VATEFSETAPATLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A799|PGK_ECOLI" protein_descr="Phosphoglycerate kinase OS=Escherichia coli (strain K12) GN=pgk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1463.7507" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="305"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9815" all_ntt_prob="(0.0000,0.2791,0.9815)"> <search_score_summary> <parameter name="fval" value="4.1240"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998837" all_ntt_prob="(0,0.862403,0.998837)"> <search_score_summary> <parameter name="nss" value="0.95"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02573.02573.2" start_scan="2573" end_scan="2573" precursor_neutral_mass="1460.0265" assumed_charge="2" index="284" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGGNSLLDLVVFGR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="1.207" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score 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value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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probability="0.999732" all_ntt_prob="(0,0.964486,0.999732)"> <search_score_summary> <parameter name="nss" value="0.9754"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01466.01466.2" start_scan="1466" end_scan="1466" precursor_neutral_mass="1452.7038" assumed_charge="2" index="288" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AADMTGADIEAMTR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="26" calc_neutral_pep_mass="1451.6387" massdiff="1.065" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01627.01627.2" start_scan="1627" end_scan="1627" precursor_neutral_mass="1447.4118" assumed_charge="2" index="289" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.640" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="388"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" precursor_neutral_mass="1428.8421" assumed_charge="2" index="291" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.096" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="197"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.59"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1379" all_ntt_prob="(0.0000,0.0012,0.1379)"> <search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1412.7627" massdiff="0.065" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="167"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9987" all_ntt_prob="(0.0000,0.8444,0.9987)"> <search_score_summary> <parameter name="fval" value="5.3274"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996688,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9886"/> <parameter name="nrs" value="1.9201"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01064.01064.2" start_scan="1064" end_scan="1064" precursor_neutral_mass="1408.7970" assumed_charge="2" index="294" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01112.01112.2" start_scan="1112" end_scan="1112" precursor_neutral_mass="1408.3456" assumed_charge="2" index="295" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="-0.313" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1287" all_ntt_prob="(0.0000,0.0011,0.1287)"> <search_score_summary> <parameter name="fval" value="0.2805"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.313"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.180636" all_ntt_prob="(0,0.00164087,0.180636)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.267"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01220.01220.2" start_scan="1220" end_scan="1220" precursor_neutral_mass="1404.7441" assumed_charge="2" index="296" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.041" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="223"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7700,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8343"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.041"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999777" all_ntt_prob="(0,0.970701,0.999777)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4766"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01860.01860.2" start_scan="1860" end_scan="1860" precursor_neutral_mass="1404.3839" assumed_charge="2" index="297" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGGESVLAGSIIVR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A7L8|RL27_ECOLI" protein_descr="50S ribosomal protein L27 OS=Escherichia coli (strain K12) GN=rpmA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1403.7777" massdiff="0.606" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9976" all_ntt_prob="(0.0000,0.7507,0.9976)"> <search_score_summary> <parameter name="fval" value="4.7321"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.606"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999619" all_ntt_prob="(0,0.949988,0.999619)"> <search_score_summary> <parameter name="nss" value="0.9805"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01918.01918.2" start_scan="1918" end_scan="1918" precursor_neutral_mass="1401.7956" assumed_charge="2" index="298" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YLGGSVHATAGTLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P75818|YBJP_ECOLI" protein_descr="Uncharacterized lipoprotein ybjP OS=Escherichia coli (strain K12) GN=ybjP" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1401.7367" massdiff="0.059" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="207"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0674" all_ntt_prob="(0.0000,0.0005,0.0674)"> <search_score_summary> <parameter name="fval" value="-0.7895"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.059"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0103789" all_ntt_prob="(0,7.25898e-005,0.0103789)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01638.01638.2" start_scan="1638" end_scan="1638" precursor_neutral_mass="1377.5447" assumed_charge="2" index="299" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="324"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<search_score name="nextscore" value="235"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9190,0.9994)"> <search_score_summary> <parameter name="fval" value="6.1992"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.370"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999982" all_ntt_prob="(0,0.997402,0.999982)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="1.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> 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<analysis_result analysis="interprophet"> <interprophet_result probability="0.999641" all_ntt_prob="(0,0.953356,0.999641)"> <search_score_summary> <parameter name="nss" value="0.9664"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01255.01255.2" start_scan="1255" end_scan="1255" precursor_neutral_mass="1289.7158" assumed_charge="2" index="317" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="0.043" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="462"/> <search_score name="nextscore" value="239"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9408,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.043"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999965" all_ntt_prob="(0,0.995646,0.999965)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.8138"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01159.01159.2" start_scan="1159" end_scan="1159" precursor_neutral_mass="1283.8468" assumed_charge="2" index="319" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGTVTPNVAEAVK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1283.7087" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6260,0.9957)"> <search_score_summary> <parameter name="fval" value="4.1973"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999909" all_ntt_prob="(0,0.987593,0.999909)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.7469"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00099.00099.2" start_scan="99" end_scan="99" precursor_neutral_mass="1274.6694" assumed_charge="2" index="320" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MATLTTGVVLLR" peptide_prev_aa="-" peptide_next_aa="W" protein="sp|P32700|YJCB_ECOLI" protein_descr="Uncharacterized protein yjcB OS=Escherichia coli (strain K12) GN=yjcB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1273.7427" massdiff="0.927" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.53"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3614" all_ntt_prob="(0.0000,0.0041,0.3614)"> <search_score_summary> <parameter name="fval" value="0.2616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.927"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.075893" all_ntt_prob="(0,0.000597075,0.075893)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01164.01164.2" start_scan="1164" end_scan="1164" precursor_neutral_mass="1272.4334" assumed_charge="2" index="321" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EHNAEVTGFIR" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01924.01924.2" start_scan="1924" end_scan="1924" precursor_neutral_mass="1261.6739" assumed_charge="2" index="324" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGNLAFLDVTGR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0ACJ8|CRP_ECOLI" protein_descr="Catabolite gene activator OS=Escherichia coli (strain K12) GN=crp" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1260.6827" massdiff="0.991" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997957" all_ntt_prob="(0,0.781645,0.997957)"> <search_score_summary> <parameter name="nss" value="0.9757"/> <parameter name="nrs" value="0.3369"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02782.02782.2" start_scan="2782" end_scan="2782" precursor_neutral_mass="1244.1000" assumed_charge="2" index="327" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALEEAGAEVEVK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1243.6297" massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999978" all_ntt_prob="(0,0.997019,0.999978)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9969"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01116.01116.2" start_scan="1116" end_scan="1116" precursor_neutral_mass="1202.3451" assumed_charge="2" index="333" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGGIVLTGSAAAK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1201.6667" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00892.00892.2" start_scan="892" end_scan="892" precursor_neutral_mass="1158.6135" assumed_charge="2" index="344" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="-0.011" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="211"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9879" all_ntt_prob="(0.0000,0.3733,0.9879)"> <search_score_summary> <parameter name="fval" value="4.5061"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.011"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995379" all_ntt_prob="(0,0.611144,0.995379)"> <search_score_summary> <parameter name="nss" value="0.6736"/> <parameter name="nrs" value="0.4797"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01312.01312.2" start_scan="1312" end_scan="1312" precursor_neutral_mass="1149.8955" assumed_charge="2" index="346" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="APVVVPAGVDVK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.220" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="363"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8901,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7794"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.220"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99995" all_ntt_prob="(0,0.993226,0.99995)"> <search_score_summary> <parameter name="nss" value="0.9891"/> <parameter name="nrs" value="0.999799"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00919.00919.2" start_scan="919" end_scan="919" precursor_neutral_mass="1139.4214" assumed_charge="2" index="347" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YYQGTPSPVK" peptide_prev_aa="R" peptide_next_aa="H" protein="sp|P08200|IDH_ECOLI" protein_descr="Isocitrate dehydrogenase [NADP] OS=Escherichia coli (strain K12) GN=icd" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1138.5657" massdiff="0.856" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9230" all_ntt_prob="(0.0000,0.0805,0.9230)"> <search_score_summary> <parameter name="fval" value="2.0270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.856"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.97662" all_ntt_prob="(0,0.233761,0.97662)"> <search_score_summary> <parameter name="nss" value="0.8182"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01654.01654.2" start_scan="1654" end_scan="1654" precursor_neutral_mass="1129.3514" assumed_charge="2" index="349" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.713" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.13"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9687" all_ntt_prob="(0.0000,0.1843,0.9687)"> <search_score_summary> <parameter name="fval" value="2.6557"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.92606" all_ntt_prob="(0,0.083775,0.92606)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9954"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01339.01339.2" start_scan="1339" end_scan="1339" precursor_neutral_mass="1125.7409" assumed_charge="2" index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter 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num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1121.5427" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="231"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9729" all_ntt_prob="(0.0000,0.2078,0.9729)"> <search_score_summary> <parameter name="fval" value="2.7598"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.838964" 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03087.03087.1" start_scan="3087" end_scan="3087" precursor_neutral_mass="1107.7485" assumed_charge="1" index="354" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.213" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="170"/> <search_score name="nextscore" value="144"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8763" all_ntt_prob="(0.0000,0.8794,0.8763)"> <search_score_summary> <parameter name="fval" value="0.4935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.213"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590231" all_ntt_prob="(0,0.597205,0.590231)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.389"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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massdiff="0.283" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="492"/> <search_score name="nextscore" value="251"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00092"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9531,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.283"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.99516,0.99996)"> <search_score_summary> <parameter name="nss" 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</search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03744.03744.3" start_scan="3744" end_scan="3744" precursor_neutral_mass="2116.0590" assumed_charge="3" index="406" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QTIVALLLSVGASSVFAAGTVK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P32688|YJBG_ECOLI" protein_descr="Uncharacterized protein yjbG OS=Escherichia coli (strain K12) GN=yjbG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2114.1987" massdiff="1.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]TIVALLLSVGASSVFAAGTVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="325"/> <search_score name="nextscore" value="280"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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</search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.26594" all_ntt_prob="(0,0.00263797,0.26594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01771.01771.2" start_scan="1771" end_scan="1771" precursor_neutral_mass="1615.2049" assumed_charge="2" index="460" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" 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<parameter name="nss" value="0.9246"/> <parameter name="nrs" value="0.4942"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03599.03599.2" start_scan="3599" end_scan="3599" precursor_neutral_mass="1609.0151" assumed_charge="2" index="461" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSVSGSGNVAQYAIEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00370|DHE4_ECOLI" protein_descr="NADP-specific glutamate dehydrogenase OS=Escherichia coli (strain K12) GN=gdhA" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="30" calc_neutral_pep_mass="1607.8157" massdiff="1.199" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01799.01799.2" start_scan="1799" end_scan="1799" precursor_neutral_mass="1598.9006" assumed_charge="2" index="462" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGQFNLDGINPAPR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1597.8217" massdiff="1.079" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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value="217"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9192" all_ntt_prob="(0.0000,0.0768,0.9192)"> <search_score_summary> <parameter name="fval" value="2.9226"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.278"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.702196" all_ntt_prob="(0,0.01695,0.702196)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4086"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01717.01717.2" start_scan="1717" end_scan="1717" precursor_neutral_mass="1535.7093" assumed_charge="2" index="474" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HASDDEPFSALAFK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1533.7097" massdiff="2.000" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="324"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9956" all_ntt_prob="(0.0000,0.6219,0.9956)"> <search_score_summary> <parameter name="fval" value="5.1165"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.000"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997633" all_ntt_prob="(0,0.753905,0.997633)"> <search_score_summary> <parameter name="nss" value="0.6891"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02010.02010.2" start_scan="2010" end_scan="2010" precursor_neutral_mass="1526.7199" assumed_charge="2" index="475" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAVTNPQNTLFAIK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1526.8097" massdiff="-0.090" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AVTNPQNTLFAIK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9835" all_ntt_prob="(0.0000,0.3035,0.9835)"> <search_score_summary> <parameter name="fval" value="4.2262"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.090"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997023" all_ntt_prob="(0,0.710013,0.997023)"> <search_score_summary> <parameter name="nss" value="0.8257"/> <parameter name="nrs" value="0.496"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02431.02431.2" start_scan="2431" end_scan="2431" precursor_neutral_mass="1518.5132" assumed_charge="2" index="476" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALESTLAAITESLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="28" calc_neutral_pep_mass="1516.8347" massdiff="1.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2386" all_ntt_prob="(0.0000,0.0023,0.2386)"> <search_score_summary> <parameter name="fval" value="0.4769"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.112892" all_ntt_prob="(0,0.000935297,0.112892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02405.02405.2" start_scan="2405" end_scan="2405" precursor_neutral_mass="1517.1830" assumed_charge="2" index="478" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALESTLAAITESLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1516.8347" massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" value="0.9889"/> <parameter name="nrs" value="0.2376"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02136.02136.2" start_scan="2136" end_scan="2136" precursor_neutral_mass="1513.6004" assumed_charge="2" index="480" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGIQAFEPVLIEGK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A8T7|RPOC_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta' OS=Escherichia coli (strain K12) GN=rpoC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1512.8547" massdiff="0.746" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0043"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6306,0.9957)"> <search_score_summary> <parameter name="fval" value="4.2146"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.746"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999553" all_ntt_prob="(0,0.942832,0.999553)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4529"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01358.01358.2" start_scan="1358" end_scan="1358" precursor_neutral_mass="1497.7533" assumed_charge="2" index="482" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ATLGEVGNAEHMLR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1496.7407" massdiff="1.013" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="280"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9540" all_ntt_prob="(0.0000,0.1317,0.9540)"> <search_score_summary> <parameter name="fval" value="3.0784"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.013"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.990679" all_ntt_prob="(0,0.437364,0.990679)"> <search_score_summary> <parameter name="nss" value="0.8044"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01842.01842.2" start_scan="1842" end_scan="1842" precursor_neutral_mass="1494.7173" assumed_charge="2" index="483" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.054"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995985" all_ntt_prob="(0,0.644487,0.995985)"> <search_score_summary> <parameter name="nss" value="0.7006"/> <parameter name="nrs" value="0.4988"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00890.00890.2" start_scan="890" end_scan="890" precursor_neutral_mass="1473.5847" assumed_charge="2" index="484" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1472.7737" massdiff="0.811" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6664,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3534"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.811"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994202" all_ntt_prob="(0,0.553103,0.994202)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.2" start_scan="2881" end_scan="2881" precursor_neutral_mass="1472.9615" assumed_charge="2" index="485" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QVGVPYIIVFLNK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1471.8437" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="C"/> <modification_info modified_peptide="Q[111]VGVPYIIVFLNK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9962" all_ntt_prob="(0.0000,0.6558,0.9962)"> <search_score_summary> <parameter name="fval" value="5.2702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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<parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTIHTARPGIVIGK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1460.8827" massdiff="-0.124" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00095"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5869" all_ntt_prob="(0.0000,0.0103,0.5869)"> <search_score_summary> <parameter name="fval" value="1.5594"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter 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tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00077"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9959" all_ntt_prob="(0.0000,0.6422,0.9959)"> <search_score_summary> <parameter name="fval" value="4.2586"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999564" all_ntt_prob="(0,0.944268,0.999564)"> <search_score_summary> <parameter name="nss" value="0.9832"/> <parameter name="nrs" value="0.4481"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01476.01476.2" start_scan="1476" end_scan="1476" precursor_neutral_mass="1452.6781" assumed_charge="2" index="492" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AADMTGADIEAMTR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="26" calc_neutral_pep_mass="1451.6387" massdiff="1.039" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01716.01716.2" start_scan="1716" end_scan="1716" precursor_neutral_mass="1448.9297" assumed_charge="2" index="493" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ETRPAAPAASDKPR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P31462|MDTL_ECOLI" protein_descr="Multidrug resistance protein mdtL OS=Escherichia coli (strain K12) GN=mdtL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1447.7527" massdiff="1.177" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]TRPAAPAASDKPR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter 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num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" all_ntt_prob="(0,0.0389148,0.8471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2265"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01812.01812.2" start_scan="1812" end_scan="1812" precursor_neutral_mass="1428.3888" assumed_charge="2" index="497" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="-0.357" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" index="499" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="1.148" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9016" all_ntt_prob="(0.0000,0.0628,0.9016)"> <search_score_summary> <parameter name="fval" value="2.5033"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.148"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.645628" all_ntt_prob="(0,0.0131487,0.645628)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3659"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01757.01757.2" start_scan="1757" end_scan="1757" precursor_neutral_mass="1414.7405" assumed_charge="2" index="500" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="WLVVDEVTQPTK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFF6|NUSA_ECOLI" protein_descr="Transcription elongation protein 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<interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01621.01621.2" start_scan="1621" end_scan="1621" precursor_neutral_mass="1414.2060" assumed_charge="2" index="501" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="507"/> <search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" assumed_charge="2" index="504" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MMTSYVIGQAMK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AEB2|DACA_ECOLI" protein_descr="D-alanyl-D-alanine carboxypeptidase dacA OS=Escherichia coli (strain K12) GN=dacA" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1406.6247" massdiff="0.227" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]M[147]TSYVIGQAM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="2" mass="147.0354"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0905" all_ntt_prob="(0.0000,0.0007,0.0905)"> <search_score_summary> <parameter name="fval" value="-0.6308"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.227"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0142344" all_ntt_prob="(0,0.000101643,0.0142344)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01985.01985.2" start_scan="1985" end_scan="1985" precursor_neutral_mass="1404.6944" assumed_charge="2" index="505" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVTLYLGAVAATVR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1403.8137" massdiff="0.881" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="307"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9803" all_ntt_prob="(0.0000,0.2663,0.9803)"> <search_score_summary> <parameter name="fval" value="2.9909"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.881"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997508" all_ntt_prob="(0,0.744879,0.997508)"> <search_score_summary> <parameter name="nss" value="0.9353"/> <parameter name="nrs" value="0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01764.01764.2" start_scan="1764" end_scan="1764" precursor_neutral_mass="1393.8373" assumed_charge="2" index="506" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KPQDLFDEFAGK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0AFG3|ODO1_ECOLI" 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</analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0681812" all_ntt_prob="(0,0.000538639,0.0681812)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00702.00702.2" start_scan="702" end_scan="702" precursor_neutral_mass="1389.3335" assumed_charge="2" index="507" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGVSKDDAEALKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="24" calc_neutral_pep_mass="1388.7147" massdiff="0.619" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="253"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0795" all_ntt_prob="(0.0000,0.0006,0.0795)"> <search_score_summary> <parameter name="fval" value="1.6355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.188948" all_ntt_prob="(0,0.00161681,0.188948)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0052"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.0000,0.4472,0.9910)"> <search_score_summary> <parameter name="fval" value="3.5959"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.440"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99961" all_ntt_prob="(0,0.949593,0.99961)"> <search_score_summary> <parameter name="nss" value="0.9553"/> <parameter name="nrs" value="1.2596"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1654"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.960"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99997" all_ntt_prob="(0,0.995451,0.99997)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01027.01027.2" start_scan="1027" end_scan="1027" precursor_neutral_mass="1245.4959" assumed_charge="2" index="537" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VQAVSTELGGER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0AFF6|NUSA_ECOLI" protein_descr="Transcription elongation protein nusA OS=Escherichia coli (strain K12) GN=nusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1244.6357" massdiff="0.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="293"/> <search_score name="nextscore" value="192"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9786" all_ntt_prob="(0.0000,0.2508,0.9786)"> <search_score_summary> <parameter name="fval" value="2.9328"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995915" all_ntt_prob="(0,0.640896,0.995915)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01463.01463.2" start_scan="1463" end_scan="1463" precursor_neutral_mass="1243.9372" assumed_charge="2" index="538" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01422.01422.2" start_scan="1422" end_scan="1422" precursor_neutral_mass="1243.1095" assumed_charge="2" index="539" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAIVAEVSEVAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.428" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="461"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" 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<search_hit hit_rank="1" peptide="HADNTLTFGPR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1227.5997" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="280"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9968" all_ntt_prob="(0.0000,0.6963,0.9968)"> <search_score_summary> <parameter name="fval" value="4.4775"/> <parameter name="ntt" value="2"/> <parameter name="nmc" 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9912" all_ntt_prob="(0.0000,0.4509,0.9912)"> <search_score_summary> <parameter name="fval" value="3.6074"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.704"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998904" all_ntt_prob="(0,0.869167,0.998904)"> <search_score_summary> <parameter name="nss" value="0.9166"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1168.6567" massdiff="0.783" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9343" all_ntt_prob="(0.0000,0.0941,0.9343)"> <search_score_summary> <parameter name="fval" value="2.1367"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.783"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9905" 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value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter 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num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="496"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9680,0.9998)"> <search_score_summary> <parameter name="fval" value="7.8216"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999989" 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value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" 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<interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9412" all_ntt_prob="(0.0000,0.1047,0.9412)"> <search_score_summary> <parameter name="fval" value="3.1713"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.977732" all_ntt_prob="(0,0.242876,0.977732)"> <search_score_summary> <parameter name="nss" value="0.8256"/> <parameter name="nrs" value="-0.4139"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01180.01180.2" start_scan="1180" end_scan="1180" precursor_neutral_mass="1030.4001" 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<parameter name="massd" value="0.443"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999747" all_ntt_prob="(0,0.966551,0.999747)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9876"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04263.04263.1" start_scan="4263" end_scan="4263" precursor_neutral_mass="1022.4610" assumed_charge="1" index="580" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYGTGLLVSR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P14565-1|TRAI1_ECOLI" protein_descr="Isoform traI of Protein traI OS=Escherichia coli (strain K12) GN=traI" num_tot_proteins="2" num_matched_ions="8" 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<search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01705.01705.3" start_scan="01705" end_scan="01705" precursor_neutral_mass="2046.4216" assumed_charge="3" index="391" retention_time_sec="2582.34"> <search_result> <search_hit hit_rank="1" peptide="FTAEGVQEIDYKDIATLK" peptide_prev_aa="R" peptide_next_aa="N" protein="tr|C3SFP7|C3SFP7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2040.0415" massdiff="+6.3801" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.756"/> <search_score name="delta" value="0.230"/> <search_score name="dot_bias" value="0.340"/> <search_score name="precursor_mz_diff" value="2.127"/> <search_score name="hits_num" value="570"/> <search_score 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<search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.645"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="79463266"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="6"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9527" all_ntt_prob="(0.0000,0.9527,0.9522)"> <search_score_summary> <parameter name="fval" value="0.6450"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.378"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.745087" all_ntt_prob="(0,0.745087,0.742984)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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name="hits_num" value="554"/> <search_score name="hits_mean" value="0.182"/> <search_score name="hits_stdev" value="0.060"/> <search_score name="fval" value="0.582"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="2570158"/> <search_score name="lib_probability" value="0.9998"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5224" all_ntt_prob="(0.0000,0.5252,0.5224)"> <search_score_summary> <parameter name="fval" value="0.5820"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.314"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.159984" all_ntt_prob="(0,0.161498,0.159984)"> <search_score_summary> <parameter name="nss" value="0.1134"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02291.02291.3" start_scan="02291" end_scan="02291" precursor_neutral_mass="2056.6964" assumed_charge="3" index="397" retention_time_sec="3250.43"> <search_result> <search_hit hit_rank="1" peptide="TVAAMDVLAPGIGEIIGGSQR" peptide_prev_aa="K" peptide_next_aa="E" protein="tr|E2QJE1|E2QJE1_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2054.0830" massdiff="+2.6134" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.656"/> <search_score name="delta" value="0.192"/> <search_score name="dot_bias" value="0.143"/> <search_score name="precursor_mz_diff" value="0.871"/> <search_score 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value="566"/> <search_score name="hits_mean" value="0.188"/> <search_score name="hits_stdev" value="0.065"/> <search_score name="fval" value="0.618"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="30209554"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="45"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0706" all_ntt_prob="(0.0000,0.0713,0.0706)"> <search_score_summary> <parameter name="fval" value="0.6180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="2.231"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0109034" all_ntt_prob="(0,0.0110185,0.0109034)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01081.01081.2" start_scan="01081" end_scan="01081" precursor_neutral_mass="1376.4788" assumed_charge="2" index="402" retention_time_sec="1869.33"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SIC2|C3SIC2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1375.7095" massdiff="+0.7693" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.894"/> <search_score name="delta" value="0.468"/> <search_score name="dot_bias" value="0.164"/> <search_score name="precursor_mz_diff" value="0.385"/> <search_score name="hits_num" value="566"/> <search_score 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<search_score name="hits_stdev" value="0.077"/> <search_score name="fval" value="0.540"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="131430062"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="84"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9999" all_ntt_prob="(0.0000,0.9999,0.9999)"> <search_score_summary> <parameter name="fval" value="0.5400"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.784"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999311" all_ntt_prob="(0,0.999311,0.999311)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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<search_score name="fval" value="0.614"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="267381044"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2609" all_ntt_prob="(0.0000,0.2631,0.2609)"> <search_score_summary> <parameter name="fval" value="0.6140"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.315997" all_ntt_prob="(0,0.318462,0.315997)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9897"/> <parameter 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<interprophet_result probability="0.0609036" all_ntt_prob="(0,0.206168,0.0609036)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01442.01442.3" start_scan="01442" end_scan="01442" precursor_neutral_mass="2240.0130" assumed_charge="3" index="547" retention_time_sec="2288.62"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+1.8704" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.916"/> <search_score name="delta" value="0.502"/> <search_score name="dot_bias" value="0.197"/> <search_score 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.997"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01458.01458.3" start_scan="01458" end_scan="01458" precursor_neutral_mass="2240.5490" assumed_charge="3" index="548" retention_time_sec="2309.63"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+2.4063" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.857"/> <search_score name="delta" value="0.433"/> <search_score name="dot_bias" value="0.190"/> <search_score name="precursor_mz_diff" value="0.802"/> <search_score name="hits_num" value="485"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.716"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7160"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.406"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" 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value="497"/> <search_score name="hits_mean" value="0.177"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.548"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9995,0.9994)"> <search_score_summary> <parameter name="fval" value="0.5480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.433"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999544" all_ntt_prob="(0,0.99962,0.999544)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter 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value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> 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value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.285"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9946"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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Tandem (k-score)" msManufacturer="Bruker Daltonics" msModel="esquire" msIonization="ESI" msMassAnalyzer="Quadrupole Ion Trap" msDetector="UNKNOWN" raw_data_type="raw" raw_data=".mzXML"> <sample_enzyme name="trypsin"> <specificity cut="KR" no_cut="P" sense="C"/> </sample_enzyme> <search_summary base_name="E:\Taverna\data\Test\Ecoli" search_engine="X! Tandem (k-score)" precursor_mass_type="monoisotopic" fragment_mass_type="monoisotopic" search_id="1"> <search_database local_path="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta" type="AA"/> <enzymatic_search_constraint enzyme="trypsin" max_num_internal_cleavages="2" min_number_termini="2"/> <aminoacid_modification aminoacid="C" massdiff="57.0215" mass="160.0306" variable="N"/> <aminoacid_modification aminoacid="C" massdiff="-17.0265" mass="143.0041" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="E" massdiff="-18.0106" mass="111.0320" variable="Y" symbol="^"/> <!--X! Tandem n-terminal AA variable modification--> <aminoacid_modification aminoacid="M" massdiff="15.9949" mass="147.0354" variable="Y"/> <aminoacid_modification aminoacid="Q" massdiff="-17.0265" mass="111.0321" variable="Y" symbol="^"/> <!--X! 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modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="234"/> <search_score name="nextscore" value="213"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0501" all_ntt_prob="(0.0000,0.0004,0.0501)"> <search_score_summary> <parameter name="fval" value="-0.9458"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01625.01625.2" start_scan="1625" end_scan="1625" precursor_neutral_mass="1152.2677" assumed_charge="2" index="36" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="-0.277" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" end_scan="899" precursor_neutral_mass="1158.7499" assumed_charge="2" index="37" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="283"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9797" all_ntt_prob="(0.0000,0.2612,0.9797)"> <search_score_summary> <parameter name="fval" value="2.9717"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.91549" all_ntt_prob="(0,0.0735236,0.91549)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4879"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01690.01690.2" start_scan="1690" end_scan="1690" precursor_neutral_mass="1161.5443" assumed_charge="2" index="38" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGFTVELNGIR" peptide_prev_aa="K" peptide_next_aa="A" 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position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9986" all_ntt_prob="(0.0000,0.8425,0.9986)"> <search_score_summary> <parameter name="fval" value="7.1331"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9998" all_ntt_prob="(0,0.974078,0.9998)"> <search_score_summary> <parameter name="nss" value="0.8784"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00920.00920.2" start_scan="920" end_scan="920" precursor_neutral_mass="1239.1063" assumed_charge="2" index="51" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.554" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7880,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.554"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999798" all_ntt_prob="(0,0.973586,0.999798)"> <search_score_summary> <parameter name="nss" value="0.9858"/> <parameter name="nrs" value="0.4897"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00913.00913.2" start_scan="913" end_scan="913" precursor_neutral_mass="1239.2481" assumed_charge="2" index="52" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.695" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="352"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.069"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9897" all_ntt_prob="(0.0000,0.4119,0.9897)"> <search_score_summary> <parameter name="fval" value="3.4831"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.695"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998967" all_ntt_prob="(0,0.875801,0.998967)"> <search_score_summary> <parameter name="nss" value="0.9883"/> <parameter name="nrs" value="0.498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01517.01517.2" start_scan="1517" end_scan="1517" precursor_neutral_mass="1243.0271" assumed_charge="2" index="53" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.345" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="165"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1113" all_ntt_prob="(0.0000,0.0009,0.1113)"> <search_score_summary> <parameter name="fval" value="-0.5156"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.345"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0189065" all_ntt_prob="(0,0.000138591,0.0189065)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0749"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01481.01481.2" start_scan="1481" end_scan="1481" precursor_neutral_mass="1243.6625" assumed_charge="2" index="54" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" all_ntt_prob="(0,0.973669,0.999802)"> <search_score_summary> <parameter name="nss" value="0.8985"/> <parameter name="nrs" value="0.974499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01110.01110.2" start_scan="1110" end_scan="1110" precursor_neutral_mass="1249.3756" assumed_charge="2" index="56" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HPVTPWGVQTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="20" calc_neutral_pep_mass="1248.6617" massdiff="0.714" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01114.01114.3" start_scan="1114" end_scan="1114" precursor_neutral_mass="1262.8771" assumed_charge="3" index="57" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAIVPAANVPKK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P24554|RADA_ECOLI" protein_descr="DNA repair protein radA OS=Escherichia coli (strain K12) GN=radA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="44" calc_neutral_pep_mass="1262.7827" massdiff="0.094" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" value="3.0700"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.729"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.889547" all_ntt_prob="(0,0.0554702,0.889547)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02038.02038.2" start_scan="2038" end_scan="2038" precursor_neutral_mass="1267.8069" assumed_charge="2" index="59" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain 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probability="0.0413526" all_ntt_prob="(0,0.000310901,0.0413526)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.1605"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01734.01734.2" start_scan="1734" end_scan="1734" precursor_neutral_mass="1276.2168" assumed_charge="2" index="60" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDLFNVNAGIVK" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1275.6827" massdiff="0.534" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="405"/> <search_score 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value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01002.01002.2" start_scan="1002" end_scan="1002" precursor_neutral_mass="1284.0191" assumed_charge="2" index="61" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGEVPADVAAQAR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0AF93|YJGF_ECOLI" protein_descr="UPF0076 protein yjgF OS=Escherichia coli (strain K12) GN=yjgF" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1283.6467" massdiff="0.372" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02290.02290.2" start_scan="2290" end_scan="2290" precursor_neutral_mass="1312.1478" assumed_charge="2" index="67" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVTDELVIALVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69441|KAD_ECOLI" protein_descr="Adenylate kinase OS=Escherichia coli (strain K12) GN=adk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1311.8017" massdiff="0.346" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> 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<search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.588"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99947" all_ntt_prob="(0,0.931787,0.99947)"> <search_score_summary> <parameter name="nss" value="0.9893"/> <parameter name="nrs" value="0.4934"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01354.01354.2" start_scan="1354" end_scan="1354" precursor_neutral_mass="1325.5898" assumed_charge="2" index="69" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITQGDDLAPGVLK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A8V2|RPOB_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta OS=Escherichia coli (strain K12) GN=rpoB" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1325.7187" massdiff="-0.129" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="209"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4319" all_ntt_prob="(0.0000,0.0055,0.4319)"> <search_score_summary> <parameter name="fval" value="1.1892"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.129"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0993637" 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9929" all_ntt_prob="(0.0000,0.5058,0.9929)"> <search_score_summary> <parameter name="fval" value="3.7842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.845"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999735" all_ntt_prob="(0,0.965069,0.999735)"> <search_score_summary> <parameter name="nss" value="0.9035"/> <parameter name="nrs" value="1.496"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0976" all_ntt_prob="(0.0000,0.0008,0.0976)"> <search_score_summary> <parameter name="fval" value="-0.5890"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.911"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0154528" all_ntt_prob="(0,0.000116174,0.0154528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02081.02081.2" start_scan="2081" end_scan="2081" precursor_neutral_mass="1343.7314" assumed_charge="2" index="76" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.946" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="553"/> <search_score name="nextscore" value="369"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9011,0.9992)"> <search_score_summary> <parameter name="fval" value="5.9212"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.946"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996924,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01591.01591.2" start_scan="1591" end_scan="1591" precursor_neutral_mass="1365.8132" assumed_charge="2" index="77" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAMIGDPTGALTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide 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analysis="interprophet"> <interprophet_result probability="0.999685" all_ntt_prob="(0,0.9587,0.999685)"> <search_score_summary> <parameter name="nss" value="0.9229"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02009.02009.2" start_scan="2009" end_scan="2009" precursor_neutral_mass="1376.5206" assumed_charge="2" index="78" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="-0.122" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" 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<search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" 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value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF 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<interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" 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num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" assumed_charge="2" index="108" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQLVGDDLFVTNTK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="26" calc_neutral_pep_mass="1561.8347" massdiff="1.028" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8052" all_ntt_prob="(0.0000,0.0293,0.8052)"> <search_score_summary> <parameter name="fval" value="1.9817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1582.8566" massdiff="0.010" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.4e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8934,0.9991)"> <search_score_summary> <parameter name="fval" value="5.8196"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.010"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9999" all_ntt_prob="(0,0.986928,0.9999)"> <search_score_summary> <parameter name="nss" value="0.9491"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01940.01940.2" start_scan="1940" end_scan="1940" precursor_neutral_mass="1583.6924" assumed_charge="2" index="115" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAQGTDVSFGSFGLK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ADY7|RL16_ECOLI" protein_descr="50S ribosomal protein L16 OS=Escherichia coli (strain K12) GN=rplP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1582.7987" massdiff="0.894" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9500" all_ntt_prob="(0.0000,0.1220,0.9500)"> <search_score_summary> <parameter name="fval" value="2.3270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.894"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.885516" all_ntt_prob="(0,0.0535384,0.885516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03659.03659.3" start_scan="3659" end_scan="3659" precursor_neutral_mass="1590.6650" assumed_charge="3" index="116" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NPDAQQAIFQEMAK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P43329|HRPA_ECOLI" protein_descr="ATP-dependent RNA helicase hrpA OS=Escherichia coli (strain K12) GN=hrpA" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="52" calc_neutral_pep_mass="1589.7507" massdiff="0.914" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="394"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3307" all_ntt_prob="(0.0048,0.0140,0.3307)"> <search_score_summary> <parameter name="fval" value="0.9934"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.914"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0669051" all_ntt_prob="(0.000699434,0.00205626,0.0669051)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02309.02309.2" start_scan="2309" end_scan="2309" precursor_neutral_mass="1598.2781" assumed_charge="2" index="117" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IATDPFVGNLTFFR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1596.8297" massdiff="1.448" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="476"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.039"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8239,0.9984)"> <search_score_summary> <parameter name="fval" value="6.3422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.448"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999836" all_ntt_prob="(0,0.978564,0.999836)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.497"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00784.00784.3" start_scan="784" end_scan="784" precursor_neutral_mass="1601.2434" assumed_charge="3" index="119" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGKK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="60" calc_neutral_pep_mass="1600.8687" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="393"/> <search_score name="nextscore" value="275"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9158" all_ntt_prob="(0.0954,0.2386,0.9158)"> <search_score_summary> <parameter name="fval" value="4.1164"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.910932" all_ntt_prob="(0.0902203,0.227602,0.910932)"> <search_score_summary> <parameter name="nss" value="0.5561"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02443.02443.2" start_scan="2443" end_scan="2443" precursor_neutral_mass="1603.3818" assumed_charge="2" index="120" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISLLDAFGAANDVLK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A9A6|FTSZ_ECOLI" protein_descr="Cell division protein ftsZ OS=Escherichia coli (strain K12) GN=ftsZ" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1602.8617" massdiff="0.520" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="216"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6662,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.520"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.975708" all_ntt_prob="(0,0.224582,0.975708)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01046.01046.2" start_scan="1046" end_scan="1046" precursor_neutral_mass="1633.9151" assumed_charge="2" index="122" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESAPAAAAPAAQPALAAR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="34" calc_neutral_pep_mass="1632.8587" massdiff="1.056" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="421"/> <search_score name="nextscore" value="258"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" 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massdiff="1.193" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="392"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9875" all_ntt_prob="(0.0000,0.3663,0.9875)"> <search_score_summary> <parameter name="fval" value="4.1364"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.193"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997911" all_ntt_prob="(0,0.777524,0.997911)"> <search_score_summary> <parameter name="nss" 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</modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1861.9537" massdiff="0.249" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0636" all_ntt_prob="(0.0007,0.0020,0.0636)"> <search_score_summary> <parameter name="fval" value="2.5131"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.249"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.3" start_scan="1350" end_scan="1350" precursor_neutral_mass="2122.3963" assumed_charge="3" index="167" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GEILGGMAAVEQPEKPAAQPK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="41" tot_num_ions="80" calc_neutral_pep_mass="2120.0937" massdiff="2.303" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2691" all_ntt_prob="(0.0036,0.0105,0.2691)"> <search_score_summary> <parameter name="fval" value="0.9943"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.303"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0507847" all_ntt_prob="(0.000524751,0.00153963,0.0507847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0018"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01938.01938.3" start_scan="1938" end_scan="1938" precursor_neutral_mass="2194.0997" assumed_charge="3" index="170" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNEIETYMDGVHLICTTAK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P0A9N4|PFLA_ECOLI" protein_descr="Pyruvate formate-lyase 1-activating enzyme OS=Escherichia coli (strain K12) GN=pflA" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="96" calc_neutral_pep_mass="2505.2067" massdiff="1.996" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="285"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1473" all_ntt_prob="(0.0017,0.0049,0.1473)"> <search_score_summary> <parameter name="fval" value="0.5280"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.996"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244553" all_ntt_prob="(0.000247059,0.000714067,0.0244553)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02288.02288.3" start_scan="2288" end_scan="2288" precursor_neutral_mass="2541.6469" assumed_charge="3" index="186" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIAYDTLVMALGSTSNDFNTPGVK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P00393|DHNA_ECOLI" protein_descr="NADH dehydrogenase OS=Escherichia coli (strain K12) GN=ndh" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="92" calc_neutral_pep_mass="2541.2787" massdiff="0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1499" all_ntt_prob="(0.0017,0.0051,0.1499)"> <search_score_summary> <parameter name="fval" value="0.5408"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0249504" all_ntt_prob="(0.000247059,0.000743341,0.0249504)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03859.03859.3" start_scan="3859" end_scan="3859" precursor_neutral_mass="2959.1409" assumed_charge="3" index="192" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATPDELAPFAKADGSMGPNVTAVSGYVR" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0184902" all_ntt_prob="(0.000188863,0.000538639,0.0184902)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03759.03759.3" start_scan="3759" end_scan="3759" precursor_neutral_mass="2729.9031" assumed_charge="3" index="193" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AMTVAVIIAGLLPILWGTGAGSEVMSR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P38054|CUSA_ECOLI" protein_descr="Cation efflux system protein cusA OS=Escherichia coli (strain K12) GN=cusA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="104" calc_neutral_pep_mass="2728.4657" massdiff="1.437" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AM[147]TVAVIIAGLLPILWGTGAGSEVMSR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="329"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0704" all_ntt_prob="(0.0007,0.0022,0.0704)"> <search_score_summary> <parameter name="fval" value="-0.1351"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.437"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="291"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1423" all_ntt_prob="(0.0016,0.0048,0.1423)"> <search_score_summary> <parameter name="fval" value="0.3266"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.299"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0235102" all_ntt_prob="(0.000232506,0.000699434,0.0235102)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0667" all_ntt_prob="(0.0007,0.0021,0.0667)"> <search_score_summary> <parameter name="fval" value="0.4854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.418"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0102646" all_ntt_prob="(0.000101643,0.000305295,0.0102646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03879.03879.3" start_scan="3879" end_scan="3879" precursor_neutral_mass="1979.3631" assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1925.9667" massdiff="0.717" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <modification_info modified_peptide="AQYDRVM[147]EELYPRLK"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="351"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2356" all_ntt_prob="(0.0030,0.0088,0.2356)"> <search_score_summary> <parameter name="fval" value="2.8181"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.717"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00733.00733.3" start_scan="733" end_scan="733" precursor_neutral_mass="1796.1121" assumed_charge="3" index="234" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="37" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="1.163" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00752.00752.3" start_scan="752" end_scan="752" precursor_neutral_mass="1795.5034" assumed_charge="3" index="235" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="0.555" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01514.01514.2" start_scan="1514" end_scan="1514" precursor_neutral_mass="1774.0746" assumed_charge="2" index="238" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVSVPGMPVTLLNMSK" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P39220|YABP_ECOLI" protein_descr="Putative uncharacterized protein yabP OS=Escherichia coli (strain K12) GN=yabP" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="30" calc_neutral_pep_mass="1773.9367" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="KVSVPGM[147]PVTLLNM[147]SK"> <mod_aminoacid_mass position="7" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="199"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01322.01322.2" start_scan="1322" end_scan="1322" precursor_neutral_mass="1746.9547" assumed_charge="2" index="241" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQEQTMLNVADNSGAR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0ADY3|RL14_ECOLI" protein_descr="50S ribosomal protein L14 OS=Escherichia coli (strain K12) GN=rplN" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1745.8367" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0056"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" precursor_neutral_mass="1615.3095" assumed_charge="2" index="257" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.486" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9942" all_ntt_prob="(0.0000,0.5554,0.9942)"> <search_score_summary> <parameter name="fval" value="4.8412"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.486"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999331" all_ntt_prob="(0,0.915882,0.999331)"> <search_score_summary> <parameter name="nss" value="0.9413"/> <parameter name="nrs" value="0.4914"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02150.02150.2" start_scan="2150" end_scan="2150" precursor_neutral_mass="1605.3076" assumed_charge="2" index="258" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNQIGSLTETLAAIK" peptide_prev_aa="K" peptide_next_aa="M" 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</analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999933" all_ntt_prob="(0,0.990988,0.999933)"> <search_score_summary> <parameter name="nss" value="0.9878"/> <parameter name="nrs" value="0.9299"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04168.04168.2" start_scan="4168" end_scan="4168" precursor_neutral_mass="1604.0711" assumed_charge="2" index="259" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SADLISIGPMLQGMR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A9M8|PTA_ECOLI" protein_descr="Phosphate acetyltransferase OS=Escherichia coli (strain K12) GN=pta" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="28" calc_neutral_pep_mass="1603.8057" massdiff="0.265" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SADLISIGPM[147]LQGMR"> <mod_aminoacid_mass position="10" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.93"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0770" all_ntt_prob="(0.0000,0.0006,0.0770)"> <search_score_summary> <parameter name="fval" value="-0.7185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.265"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03332.03332.3" start_scan="3332" end_scan="3332" precursor_neutral_mass="1576.6472" assumed_charge="3" index="261" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYFTFLMPDSLTR" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76464|YFAS_ECOLI" protein_descr="Putative UPF0192 protein yfaS OS=Escherichia coli (strain K12) GN=yfaS" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="48" calc_neutral_pep_mass="1576.7597" massdiff="-0.113" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AYFTFLM[147]PDSLTR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="359"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2212" all_ntt_prob="(0.0027,0.0081,0.2212)"> <search_score_summary> <parameter name="fval" value="1.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0395857" all_ntt_prob="(0.000392724,0.00118365,0.0395857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04318.04318.2" start_scan="4318" end_scan="4318" precursor_neutral_mass="1562.4659" assumed_charge="2" index="264" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLYAFDPALEGLR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="26" calc_neutral_pep_mass="1562.8097" massdiff="-0.344" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> 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<search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9960" all_ntt_prob="(0.0000,0.6467,0.9960)"> <search_score_summary> <parameter name="fval" value="4.2758"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.982345" all_ntt_prob="(0,0.290287,0.982345)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4835"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01920.01920.2" start_scan="1920" end_scan="1920" precursor_neutral_mass="1515.4569" assumed_charge="2" index="272" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGPLAGYPVVDMGIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1514.7917" massdiff="0.665" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="358"/> <search_score name="nextscore" value="212"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7243,0.9972)"> <search_score_summary> <parameter name="fval" value="4.6033"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.665"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999566" all_ntt_prob="(0,0.94436,0.999566)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02141.02141.2" start_scan="2141" end_scan="2141" precursor_neutral_mass="1513.9488" assumed_charge="2" index="273" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGIQAFEPVLIEGK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A8T7|RPOC_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta' OS=Escherichia coli (strain K12) GN=rpoC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1512.8547" massdiff="1.094" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="250"/> <search_score name="nextscore" value="143"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9529" all_ntt_prob="(0.0000,0.1288,0.9529)"> <search_score_summary> <parameter name="fval" value="3.0599"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994" all_ntt_prob="(0,0.547645,0.994)"> <search_score_summary> <parameter name="nss" value="0.9212"/> <parameter name="nrs" value="0.4957"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02260.02260.2" start_scan="2260" end_scan="2260" precursor_neutral_mass="1512.6423" assumed_charge="2" index="274" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLPIPVVITVYADR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1511.8707" massdiff="0.772" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="433"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00043"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9319,0.9995)"> <search_score_summary> <parameter name="fval" value="6.4524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.772"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.992833,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9896"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00828.00828.2" start_scan="828" end_scan="828" precursor_neutral_mass="1505.8950" assumed_charge="2" index="277" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VINSGQVCNCAER" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P25553|ALDA_ECOLI" protein_descr="Lactaldehyde dehydrogenase OS=Escherichia coli (strain K12) GN=aldA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1505.6717" massdiff="0.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VINSGQVCNCAER"> <mod_aminoacid_mass position="8" mass="160.0306"/> <mod_aminoacid_mass position="10" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="415"/> <search_score name="nextscore" value="199"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9363,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5547"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999923" all_ntt_prob="(0,0.989593,0.999923)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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</search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0649748" all_ntt_prob="(0,0.000509436,0.0649748)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01308.01308.2" start_scan="1308" end_scan="1308" precursor_neutral_mass="1463.5334" assumed_charge="2" index="283" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VATEFSETAPATLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A799|PGK_ECOLI" protein_descr="Phosphoglycerate kinase OS=Escherichia coli (strain K12) GN=pgk" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1463.7507" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="305"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9815" all_ntt_prob="(0.0000,0.2791,0.9815)"> <search_score_summary> <parameter name="fval" value="4.1240"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998837" all_ntt_prob="(0,0.862403,0.998837)"> <search_score_summary> <parameter name="nss" value="0.95"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02573.02573.2" start_scan="2573" end_scan="2573" precursor_neutral_mass="1460.0265" assumed_charge="2" index="284" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGGNSLLDLVVFGR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="1.207" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score 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value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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probability="0.999732" all_ntt_prob="(0,0.964486,0.999732)"> <search_score_summary> <parameter name="nss" value="0.9754"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01466.01466.2" start_scan="1466" end_scan="1466" precursor_neutral_mass="1452.7038" assumed_charge="2" index="288" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AADMTGADIEAMTR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="26" calc_neutral_pep_mass="1451.6387" massdiff="1.065" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01627.01627.2" start_scan="1627" end_scan="1627" precursor_neutral_mass="1447.4118" assumed_charge="2" index="289" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.640" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="388"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" precursor_neutral_mass="1428.8421" assumed_charge="2" index="291" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.096" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="197"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.59"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1379" all_ntt_prob="(0.0000,0.0012,0.1379)"> <search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1412.7627" massdiff="0.065" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="167"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9987" all_ntt_prob="(0.0000,0.8444,0.9987)"> <search_score_summary> <parameter name="fval" value="5.3274"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996688,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9886"/> <parameter name="nrs" value="1.9201"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01064.01064.2" start_scan="1064" end_scan="1064" precursor_neutral_mass="1408.7970" assumed_charge="2" index="294" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01112.01112.2" start_scan="1112" end_scan="1112" precursor_neutral_mass="1408.3456" assumed_charge="2" index="295" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="-0.313" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1287" all_ntt_prob="(0.0000,0.0011,0.1287)"> <search_score_summary> <parameter name="fval" value="0.2805"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.313"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.180636" all_ntt_prob="(0,0.00164087,0.180636)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.267"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01220.01220.2" start_scan="1220" end_scan="1220" precursor_neutral_mass="1404.7441" assumed_charge="2" index="296" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.041" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="223"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7700,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8343"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.041"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999777" all_ntt_prob="(0,0.970701,0.999777)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4766"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01860.01860.2" start_scan="1860" end_scan="1860" precursor_neutral_mass="1404.3839" assumed_charge="2" index="297" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FGGESVLAGSIIVR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A7L8|RL27_ECOLI" protein_descr="50S ribosomal protein L27 OS=Escherichia coli (strain K12) GN=rpmA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" calc_neutral_pep_mass="1403.7777" massdiff="0.606" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9976" all_ntt_prob="(0.0000,0.7507,0.9976)"> <search_score_summary> <parameter name="fval" value="4.7321"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.606"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999619" all_ntt_prob="(0,0.949988,0.999619)"> <search_score_summary> <parameter name="nss" value="0.9805"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01918.01918.2" start_scan="1918" end_scan="1918" precursor_neutral_mass="1401.7956" assumed_charge="2" index="298" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YLGGSVHATAGTLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P75818|YBJP_ECOLI" protein_descr="Uncharacterized lipoprotein ybjP OS=Escherichia coli (strain K12) GN=ybjP" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1401.7367" massdiff="0.059" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="207"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0674" all_ntt_prob="(0.0000,0.0005,0.0674)"> <search_score_summary> <parameter name="fval" value="-0.7895"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.059"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0103789" all_ntt_prob="(0,7.25898e-005,0.0103789)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01638.01638.2" start_scan="1638" end_scan="1638" precursor_neutral_mass="1377.5447" assumed_charge="2" index="299" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="324"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<search_score name="nextscore" value="235"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9190,0.9994)"> <search_score_summary> <parameter name="fval" value="6.1992"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.370"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999982" all_ntt_prob="(0,0.997402,0.999982)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="1.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> 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<analysis_result analysis="interprophet"> <interprophet_result probability="0.999641" all_ntt_prob="(0,0.953356,0.999641)"> <search_score_summary> <parameter name="nss" value="0.9664"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01255.01255.2" start_scan="1255" end_scan="1255" precursor_neutral_mass="1289.7158" assumed_charge="2" index="317" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="0.043" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="462"/> <search_score name="nextscore" value="239"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9408,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.043"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999965" all_ntt_prob="(0,0.995646,0.999965)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.8138"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01159.01159.2" start_scan="1159" end_scan="1159" precursor_neutral_mass="1283.8468" assumed_charge="2" index="319" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGTVTPNVAEAVK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1283.7087" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6260,0.9957)"> <search_score_summary> <parameter name="fval" value="4.1973"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999909" all_ntt_prob="(0,0.987593,0.999909)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.7469"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00099.00099.2" start_scan="99" end_scan="99" precursor_neutral_mass="1274.6694" assumed_charge="2" index="320" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MATLTTGVVLLR" peptide_prev_aa="-" peptide_next_aa="W" protein="sp|P32700|YJCB_ECOLI" protein_descr="Uncharacterized protein yjcB OS=Escherichia coli (strain K12) GN=yjcB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1273.7427" massdiff="0.927" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.53"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3614" all_ntt_prob="(0.0000,0.0041,0.3614)"> <search_score_summary> <parameter name="fval" value="0.2616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.927"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.075893" all_ntt_prob="(0,0.000597075,0.075893)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01164.01164.2" start_scan="1164" end_scan="1164" precursor_neutral_mass="1272.4334" assumed_charge="2" index="321" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EHNAEVTGFIR" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01924.01924.2" start_scan="1924" end_scan="1924" precursor_neutral_mass="1261.6739" assumed_charge="2" index="324" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGNLAFLDVTGR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0ACJ8|CRP_ECOLI" protein_descr="Catabolite gene activator OS=Escherichia coli (strain K12) GN=crp" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1260.6827" massdiff="0.991" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997957" all_ntt_prob="(0,0.781645,0.997957)"> <search_score_summary> <parameter name="nss" value="0.9757"/> <parameter name="nrs" value="0.3369"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02782.02782.2" start_scan="2782" end_scan="2782" precursor_neutral_mass="1244.1000" assumed_charge="2" index="327" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALEEAGAEVEVK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1243.6297" massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999978" all_ntt_prob="(0,0.997019,0.999978)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9969"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01116.01116.2" start_scan="1116" end_scan="1116" precursor_neutral_mass="1202.3451" assumed_charge="2" index="333" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGGIVLTGSAAAK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1201.6667" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00892.00892.2" start_scan="892" end_scan="892" precursor_neutral_mass="1158.6135" assumed_charge="2" index="344" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTGQALTVNEK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1158.6247" massdiff="-0.011" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="211"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9879" all_ntt_prob="(0.0000,0.3733,0.9879)"> <search_score_summary> <parameter name="fval" value="4.5061"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.011"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995379" all_ntt_prob="(0,0.611144,0.995379)"> <search_score_summary> <parameter name="nss" value="0.6736"/> <parameter name="nrs" value="0.4797"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01312.01312.2" start_scan="1312" end_scan="1312" precursor_neutral_mass="1149.8955" assumed_charge="2" index="346" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="APVVVPAGVDVK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.220" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="363"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8901,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7794"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.220"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99995" all_ntt_prob="(0,0.993226,0.99995)"> <search_score_summary> <parameter name="nss" value="0.9891"/> <parameter name="nrs" value="0.999799"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00919.00919.2" start_scan="919" end_scan="919" precursor_neutral_mass="1139.4214" assumed_charge="2" index="347" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YYQGTPSPVK" peptide_prev_aa="R" peptide_next_aa="H" protein="sp|P08200|IDH_ECOLI" protein_descr="Isocitrate dehydrogenase [NADP] OS=Escherichia coli (strain K12) GN=icd" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1138.5657" massdiff="0.856" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9230" all_ntt_prob="(0.0000,0.0805,0.9230)"> <search_score_summary> <parameter name="fval" value="2.0270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.856"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.97662" all_ntt_prob="(0,0.233761,0.97662)"> <search_score_summary> <parameter name="nss" value="0.8182"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01654.01654.2" start_scan="1654" end_scan="1654" precursor_neutral_mass="1129.3514" assumed_charge="2" index="349" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.713" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="361"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.13"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9687" all_ntt_prob="(0.0000,0.1843,0.9687)"> <search_score_summary> <parameter name="fval" value="2.6557"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.92606" all_ntt_prob="(0,0.083775,0.92606)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9954"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01339.01339.2" start_scan="1339" end_scan="1339" precursor_neutral_mass="1125.7409" assumed_charge="2" index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter 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num_tot_proteins="1" num_matched_ions="15" tot_num_ions="18" calc_neutral_pep_mass="1121.5427" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="231"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9729" all_ntt_prob="(0.0000,0.2078,0.9729)"> <search_score_summary> <parameter name="fval" value="2.7598"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.838964" 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03087.03087.1" start_scan="3087" end_scan="3087" precursor_neutral_mass="1107.7485" assumed_charge="1" index="354" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.213" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="170"/> <search_score name="nextscore" value="144"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8763" all_ntt_prob="(0.0000,0.8794,0.8763)"> <search_score_summary> <parameter name="fval" value="0.4935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.213"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590231" all_ntt_prob="(0,0.597205,0.590231)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.389"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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massdiff="0.283" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="492"/> <search_score name="nextscore" value="251"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00092"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9531,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.283"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.99516,0.99996)"> <search_score_summary> <parameter name="nss" 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</search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03744.03744.3" start_scan="3744" end_scan="3744" precursor_neutral_mass="2116.0590" assumed_charge="3" index="406" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QTIVALLLSVGASSVFAAGTVK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P32688|YJBG_ECOLI" protein_descr="Uncharacterized protein yjbG OS=Escherichia coli (strain K12) GN=yjbG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2114.1987" massdiff="1.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]TIVALLLSVGASSVFAAGTVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="325"/> <search_score name="nextscore" value="280"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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</search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.26594" all_ntt_prob="(0,0.00263797,0.26594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01771.01771.2" start_scan="1771" end_scan="1771" precursor_neutral_mass="1615.2049" assumed_charge="2" index="460" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" 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<parameter name="nss" value="0.9246"/> <parameter name="nrs" value="0.4942"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03599.03599.2" start_scan="3599" end_scan="3599" precursor_neutral_mass="1609.0151" assumed_charge="2" index="461" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSVSGSGNVAQYAIEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00370|DHE4_ECOLI" protein_descr="NADP-specific glutamate dehydrogenase OS=Escherichia coli (strain K12) GN=gdhA" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="30" calc_neutral_pep_mass="1607.8157" massdiff="1.199" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01799.01799.2" start_scan="1799" end_scan="1799" precursor_neutral_mass="1598.9006" assumed_charge="2" index="462" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGQFNLDGINPAPR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1597.8217" massdiff="1.079" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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value="217"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9192" all_ntt_prob="(0.0000,0.0768,0.9192)"> <search_score_summary> <parameter name="fval" value="2.9226"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.278"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.702196" all_ntt_prob="(0,0.01695,0.702196)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4086"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01717.01717.2" start_scan="1717" end_scan="1717" precursor_neutral_mass="1535.7093" assumed_charge="2" index="474" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HASDDEPFSALAFK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1533.7097" massdiff="2.000" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="324"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9956" all_ntt_prob="(0.0000,0.6219,0.9956)"> <search_score_summary> <parameter name="fval" value="5.1165"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.000"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997633" all_ntt_prob="(0,0.753905,0.997633)"> <search_score_summary> <parameter name="nss" value="0.6891"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02010.02010.2" start_scan="2010" end_scan="2010" precursor_neutral_mass="1526.7199" assumed_charge="2" index="475" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAVTNPQNTLFAIK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1526.8097" massdiff="-0.090" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AVTNPQNTLFAIK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9835" all_ntt_prob="(0.0000,0.3035,0.9835)"> <search_score_summary> <parameter name="fval" value="4.2262"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.090"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997023" all_ntt_prob="(0,0.710013,0.997023)"> <search_score_summary> <parameter name="nss" value="0.8257"/> <parameter name="nrs" value="0.496"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02431.02431.2" start_scan="2431" end_scan="2431" precursor_neutral_mass="1518.5132" assumed_charge="2" index="476" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALESTLAAITESLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="28" calc_neutral_pep_mass="1516.8347" massdiff="1.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2386" all_ntt_prob="(0.0000,0.0023,0.2386)"> <search_score_summary> <parameter name="fval" value="0.4769"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.112892" all_ntt_prob="(0,0.000935297,0.112892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02405.02405.2" start_scan="2405" end_scan="2405" precursor_neutral_mass="1517.1830" assumed_charge="2" index="478" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALESTLAAITESLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1516.8347" massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" value="0.9889"/> <parameter name="nrs" value="0.2376"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02136.02136.2" start_scan="2136" end_scan="2136" precursor_neutral_mass="1513.6004" assumed_charge="2" index="480" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGIQAFEPVLIEGK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A8T7|RPOC_ECOLI" protein_descr="DNA-directed RNA polymerase subunit beta' OS=Escherichia coli (strain K12) GN=rpoC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1512.8547" massdiff="0.746" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0043"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6306,0.9957)"> <search_score_summary> <parameter name="fval" value="4.2146"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.746"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999553" all_ntt_prob="(0,0.942832,0.999553)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4529"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01358.01358.2" start_scan="1358" end_scan="1358" precursor_neutral_mass="1497.7533" assumed_charge="2" index="482" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ATLGEVGNAEHMLR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="26" calc_neutral_pep_mass="1496.7407" massdiff="1.013" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="280"/> <search_score name="nextscore" value="174"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9540" all_ntt_prob="(0.0000,0.1317,0.9540)"> <search_score_summary> <parameter name="fval" value="3.0784"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.013"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.990679" all_ntt_prob="(0,0.437364,0.990679)"> <search_score_summary> <parameter name="nss" value="0.8044"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01842.01842.2" start_scan="1842" end_scan="1842" precursor_neutral_mass="1494.7173" assumed_charge="2" index="483" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.054"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995985" all_ntt_prob="(0,0.644487,0.995985)"> <search_score_summary> <parameter name="nss" value="0.7006"/> <parameter name="nrs" value="0.4988"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00890.00890.2" start_scan="890" end_scan="890" precursor_neutral_mass="1473.5847" assumed_charge="2" index="484" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1472.7737" massdiff="0.811" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6664,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3534"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.811"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994202" all_ntt_prob="(0,0.553103,0.994202)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.2" start_scan="2881" end_scan="2881" precursor_neutral_mass="1472.9615" assumed_charge="2" index="485" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QVGVPYIIVFLNK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1471.8437" massdiff="1.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="C"/> <modification_info modified_peptide="Q[111]VGVPYIIVFLNK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.01"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9962" all_ntt_prob="(0.0000,0.6558,0.9962)"> <search_score_summary> <parameter name="fval" value="5.2702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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<parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTIHTARPGIVIGK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1460.8827" massdiff="-0.124" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00095"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5869" all_ntt_prob="(0.0000,0.0103,0.5869)"> <search_score_summary> <parameter name="fval" value="1.5594"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter 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tot_num_ions="26" calc_neutral_pep_mass="1458.8197" massdiff="0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00077"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9959" all_ntt_prob="(0.0000,0.6422,0.9959)"> <search_score_summary> <parameter name="fval" value="4.2586"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999564" all_ntt_prob="(0,0.944268,0.999564)"> <search_score_summary> <parameter name="nss" value="0.9832"/> <parameter name="nrs" value="0.4481"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01476.01476.2" start_scan="1476" end_scan="1476" precursor_neutral_mass="1452.6781" assumed_charge="2" index="492" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AADMTGADIEAMTR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="26" calc_neutral_pep_mass="1451.6387" massdiff="1.039" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01716.01716.2" start_scan="1716" end_scan="1716" precursor_neutral_mass="1448.9297" assumed_charge="2" index="493" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ETRPAAPAASDKPR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P31462|MDTL_ECOLI" protein_descr="Multidrug resistance protein mdtL OS=Escherichia coli (strain K12) GN=mdtL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1447.7527" massdiff="1.177" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]TRPAAPAASDKPR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter 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num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" all_ntt_prob="(0,0.0389148,0.8471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2265"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01812.01812.2" start_scan="1812" end_scan="1812" precursor_neutral_mass="1428.3888" assumed_charge="2" index="497" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="-0.357" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" index="499" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="1.148" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9016" all_ntt_prob="(0.0000,0.0628,0.9016)"> <search_score_summary> <parameter name="fval" value="2.5033"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.148"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.645628" all_ntt_prob="(0,0.0131487,0.645628)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3659"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01757.01757.2" start_scan="1757" end_scan="1757" precursor_neutral_mass="1414.7405" assumed_charge="2" index="500" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="WLVVDEVTQPTK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFF6|NUSA_ECOLI" protein_descr="Transcription elongation protein 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<interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01621.01621.2" start_scan="1621" end_scan="1621" precursor_neutral_mass="1414.2060" assumed_charge="2" index="501" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="507"/> <search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" assumed_charge="2" index="504" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MMTSYVIGQAMK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0AEB2|DACA_ECOLI" protein_descr="D-alanyl-D-alanine carboxypeptidase dacA OS=Escherichia coli (strain K12) GN=dacA" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1406.6247" massdiff="0.227" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]M[147]TSYVIGQAM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="2" mass="147.0354"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0905" all_ntt_prob="(0.0000,0.0007,0.0905)"> <search_score_summary> <parameter name="fval" value="-0.6308"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.227"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0142344" all_ntt_prob="(0,0.000101643,0.0142344)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01985.01985.2" start_scan="1985" end_scan="1985" precursor_neutral_mass="1404.6944" assumed_charge="2" index="505" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVTLYLGAVAATVR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1403.8137" massdiff="0.881" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="307"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.068"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9803" all_ntt_prob="(0.0000,0.2663,0.9803)"> <search_score_summary> <parameter name="fval" value="2.9909"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.881"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997508" all_ntt_prob="(0,0.744879,0.997508)"> <search_score_summary> <parameter name="nss" value="0.9353"/> <parameter name="nrs" value="0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01764.01764.2" start_scan="1764" end_scan="1764" precursor_neutral_mass="1393.8373" assumed_charge="2" index="506" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KPQDLFDEFAGK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0AFG3|ODO1_ECOLI" 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</analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0681812" all_ntt_prob="(0,0.000538639,0.0681812)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00702.00702.2" start_scan="702" end_scan="702" precursor_neutral_mass="1389.3335" assumed_charge="2" index="507" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGVSKDDAEALKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="24" calc_neutral_pep_mass="1388.7147" massdiff="0.619" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="253"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0795" all_ntt_prob="(0.0000,0.0006,0.0795)"> <search_score_summary> <parameter name="fval" value="1.6355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.188948" all_ntt_prob="(0,0.00161681,0.188948)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0052"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.0000,0.4472,0.9910)"> <search_score_summary> <parameter name="fval" value="3.5959"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.440"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99961" all_ntt_prob="(0,0.949593,0.99961)"> <search_score_summary> <parameter name="nss" value="0.9553"/> <parameter name="nrs" value="1.2596"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1654"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.960"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99997" all_ntt_prob="(0,0.995451,0.99997)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01027.01027.2" start_scan="1027" end_scan="1027" precursor_neutral_mass="1245.4959" assumed_charge="2" index="537" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VQAVSTELGGER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0AFF6|NUSA_ECOLI" protein_descr="Transcription elongation protein nusA OS=Escherichia coli (strain K12) GN=nusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1244.6357" massdiff="0.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="293"/> <search_score name="nextscore" value="192"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9786" all_ntt_prob="(0.0000,0.2508,0.9786)"> <search_score_summary> <parameter name="fval" value="2.9328"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995915" all_ntt_prob="(0,0.640896,0.995915)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01463.01463.2" start_scan="1463" end_scan="1463" precursor_neutral_mass="1243.9372" assumed_charge="2" index="538" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01422.01422.2" start_scan="1422" end_scan="1422" precursor_neutral_mass="1243.1095" assumed_charge="2" index="539" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAIVAEVSEVAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.428" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="461"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" 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<search_hit hit_rank="1" peptide="HADNTLTFGPR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1227.5997" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="280"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9968" all_ntt_prob="(0.0000,0.6963,0.9968)"> <search_score_summary> <parameter name="fval" value="4.4775"/> <parameter name="ntt" value="2"/> <parameter name="nmc" 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9912" all_ntt_prob="(0.0000,0.4509,0.9912)"> <search_score_summary> <parameter name="fval" value="3.6074"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.704"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998904" all_ntt_prob="(0,0.869167,0.998904)"> <search_score_summary> <parameter name="nss" value="0.9166"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1168.6567" massdiff="0.783" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9343" all_ntt_prob="(0.0000,0.0941,0.9343)"> <search_score_summary> <parameter name="fval" value="2.1367"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.783"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9905" 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value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter 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num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1149.6757" massdiff="0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="496"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9680,0.9998)"> <search_score_summary> <parameter name="fval" value="7.8216"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999989" 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value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" 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<interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9412" all_ntt_prob="(0.0000,0.1047,0.9412)"> <search_score_summary> <parameter name="fval" value="3.1713"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.977732" all_ntt_prob="(0,0.242876,0.977732)"> <search_score_summary> <parameter name="nss" value="0.8256"/> <parameter name="nrs" value="-0.4139"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01180.01180.2" start_scan="1180" end_scan="1180" precursor_neutral_mass="1030.4001" 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<parameter name="massd" value="0.443"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999747" all_ntt_prob="(0,0.966551,0.999747)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9876"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04263.04263.1" start_scan="4263" end_scan="4263" precursor_neutral_mass="1022.4610" assumed_charge="1" index="580" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYGTGLLVSR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P14565-1|TRAI1_ECOLI" protein_descr="Isoform traI of Protein traI OS=Escherichia coli (strain K12) GN=traI" num_tot_proteins="2" num_matched_ions="8" 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<search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01705.01705.3" start_scan="01705" end_scan="01705" precursor_neutral_mass="2046.4216" assumed_charge="3" index="391" retention_time_sec="2582.34"> <search_result> <search_hit hit_rank="1" peptide="FTAEGVQEIDYKDIATLK" peptide_prev_aa="R" peptide_next_aa="N" protein="tr|C3SFP7|C3SFP7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2040.0415" massdiff="+6.3801" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.756"/> <search_score name="delta" value="0.230"/> <search_score name="dot_bias" value="0.340"/> <search_score name="precursor_mz_diff" value="2.127"/> <search_score name="hits_num" value="570"/> <search_score 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<search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.645"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="79463266"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="6"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9527" all_ntt_prob="(0.0000,0.9527,0.9522)"> <search_score_summary> <parameter name="fval" value="0.6450"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.378"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.745087" all_ntt_prob="(0,0.745087,0.742984)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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name="hits_num" value="554"/> <search_score name="hits_mean" value="0.182"/> <search_score name="hits_stdev" value="0.060"/> <search_score name="fval" value="0.582"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="2570158"/> <search_score name="lib_probability" value="0.9998"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5224" all_ntt_prob="(0.0000,0.5252,0.5224)"> <search_score_summary> <parameter name="fval" value="0.5820"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.314"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.159984" all_ntt_prob="(0,0.161498,0.159984)"> <search_score_summary> <parameter name="nss" value="0.1134"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02291.02291.3" start_scan="02291" end_scan="02291" precursor_neutral_mass="2056.6964" assumed_charge="3" index="397" retention_time_sec="3250.43"> <search_result> <search_hit hit_rank="1" peptide="TVAAMDVLAPGIGEIIGGSQR" peptide_prev_aa="K" peptide_next_aa="E" protein="tr|E2QJE1|E2QJE1_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2054.0830" massdiff="+2.6134" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.656"/> <search_score name="delta" value="0.192"/> <search_score name="dot_bias" value="0.143"/> <search_score name="precursor_mz_diff" value="0.871"/> <search_score 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value="566"/> <search_score name="hits_mean" value="0.188"/> <search_score name="hits_stdev" value="0.065"/> <search_score name="fval" value="0.618"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="30209554"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="45"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0706" all_ntt_prob="(0.0000,0.0713,0.0706)"> <search_score_summary> <parameter name="fval" value="0.6180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="2.231"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0109034" all_ntt_prob="(0,0.0110185,0.0109034)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01081.01081.2" start_scan="01081" end_scan="01081" precursor_neutral_mass="1376.4788" assumed_charge="2" index="402" retention_time_sec="1869.33"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SIC2|C3SIC2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1375.7095" massdiff="+0.7693" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.894"/> <search_score name="delta" value="0.468"/> <search_score name="dot_bias" value="0.164"/> <search_score name="precursor_mz_diff" value="0.385"/> <search_score name="hits_num" value="566"/> <search_score 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<search_score name="hits_stdev" value="0.077"/> <search_score name="fval" value="0.540"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="131430062"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="84"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9999" all_ntt_prob="(0.0000,0.9999,0.9999)"> <search_score_summary> <parameter name="fval" value="0.5400"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.784"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999311" all_ntt_prob="(0,0.999311,0.999311)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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<search_score name="fval" value="0.614"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="267381044"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2609" all_ntt_prob="(0.0000,0.2631,0.2609)"> <search_score_summary> <parameter name="fval" value="0.6140"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.315997" all_ntt_prob="(0,0.318462,0.315997)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9897"/> <parameter 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<interprophet_result probability="0.0609036" all_ntt_prob="(0,0.206168,0.0609036)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01442.01442.3" start_scan="01442" end_scan="01442" precursor_neutral_mass="2240.0130" assumed_charge="3" index="547" retention_time_sec="2288.62"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+1.8704" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.916"/> <search_score name="delta" value="0.502"/> <search_score name="dot_bias" value="0.197"/> <search_score 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.997"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01458.01458.3" start_scan="01458" end_scan="01458" precursor_neutral_mass="2240.5490" assumed_charge="3" index="548" retention_time_sec="2309.63"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+2.4063" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.857"/> <search_score name="delta" value="0.433"/> <search_score name="dot_bias" value="0.190"/> <search_score name="precursor_mz_diff" value="0.802"/> <search_score name="hits_num" value="485"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.716"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7160"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.406"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" 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value="497"/> <search_score name="hits_mean" value="0.177"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.548"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9995,0.9994)"> <search_score_summary> <parameter name="fval" value="0.5480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.433"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999544" all_ntt_prob="(0,0.99962,0.999544)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter 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value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> 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value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.285"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9946"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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</search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01904.01904.1" start_scan="01904" end_scan="01904" precursor_neutral_mass="928.7217" assumed_charge="1" index="757" retention_time_sec="2802.97"> <search_result> <search_hit hit_rank="1" peptide="PFVDGGVIK" peptide_prev_aa="V" peptide_next_aa="A" protein="tr|C3SSG2|C3SSG2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="930.5174" massdiff="-1.7957" num_tol_term="1" num_missed_cleavages="0"> <search_score name="dot" value="0.834"/> <search_score name="delta" value="0.437"/> <search_score name="dot_bias" value="0.166"/> <search_score name="precursor_mz_diff" value="-1.796"/> <search_score name="hits_num" value="289"/> <search_score name="hits_mean" value="0.123"/> <search_score name="hits_stdev" value="0.077"/> <search_score name="fval" value="0.710"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="1"/> <search_score name="lib_file_offset" value="204117518"/> 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</spectrum_query> </msms_run_summary> </msms_pipeline_analysis> /default:msms_pipeline_analysis/default:msms_run_summary/default:spectrum_query/default:search_result/default:search_hit/@protein default http://regis-web.systemsbiology.net/pepXML xsi http://www.w3.org/2001/XMLSchema-instance net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecombine_IDs_and_properties_pelletprot_list1Gravy_score1ID1MW1pI1Prot_seq1out_pel00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity prot_list 1 text/plain java.lang.String true ID 1 text/plain java.lang.String true MW 1 text/plain java.lang.String true Gravy_score 1 text/plain java.lang.String true Prot_seq 1 text/plain java.lang.String true pI 1 text/plain java.lang.String true out_pel 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokecombine_IDs_and_properties_supernatantprot_list1Gravy_score1ID1MW1pI1Prot_seq1out_sup00net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity prot_list 1 text/plain java.lang.String true ID 1 text/plain java.lang.String true MW 1 text/plain java.lang.String true Gravy_score 1 text/plain java.lang.String true Prot_seq 1 text/plain java.lang.String true pI 1 text/plain java.lang.String true out_sup 0 0 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeextract_peptide_sequences_rawxml_text0nodelist11net.sf.taverna.t2.activitiesxpath-activity1.4net.sf.taverna.t2.activities.xpath.XPathActivity <?xml version="1.0" encoding="UTF-8"?> <msms_pipeline_analysis xmlns="http://regis-web.systemsbiology.net/pepXML" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" date="2012-06-11T14:25:15" xsi:schemaLocation="http://regis-web.systemsbiology.net/pepXML 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Tandem n-terminal AA variable modification--> <!-- Input parameters --> <parameter name="list path, taxonomy information" value="E:\Taverna\data\Test\Ecoli.taxonomy.xml"/> <parameter name="output, histogram column width" value="30"/> <parameter name="output, histograms" value="no"/> <parameter name="output, maximum valid expectation value" value="0.1"/> <parameter name="output, message" value="1234567890"/> <parameter name="output, one sequence copy" value="no"/> <parameter name="output, parameters" value="yes"/> <parameter name="output, path" value="E:\Taverna\data\Test\Ecoli.tandem"/> <parameter name="output, path hashing" value="no"/> <parameter name="output, performance" value="yes"/> <parameter name="output, proteins" value="yes"/> <parameter name="output, results" value="all"/> <parameter name="output, sequences" value="no"/> <parameter name="output, sort results by" value="spectrum"/> <parameter name="output, spectra" value="yes"/> <parameter name="protein, C-terminal residue modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="234"/> <search_score name="nextscore" value="213"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0501" all_ntt_prob="(0.0000,0.0004,0.0501)"> <search_score_summary> <parameter name="fval" value="-0.9458"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> 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<search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" 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value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00920.00920.2" start_scan="920" end_scan="920" precursor_neutral_mass="1239.1063" assumed_charge="2" index="51" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.554" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7880,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.554"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999798" all_ntt_prob="(0,0.973586,0.999798)"> <search_score_summary> <parameter name="nss" value="0.9858"/> <parameter name="nrs" value="0.4897"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> 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index="53" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.345" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="165"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1113" all_ntt_prob="(0.0000,0.0009,0.1113)"> <search_score_summary> <parameter name="fval" value="-0.5156"/> <parameter 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num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" 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value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" 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all_ntt_prob="(0,0.0414221,0.855197)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00944.00944.2" start_scan="944" end_scan="944" precursor_neutral_mass="1339.4037" assumed_charge="2" index="74" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.762" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9915" all_ntt_prob="(0.0000,0.4616,0.9915)"> <search_score_summary> <parameter name="fval" value="3.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.762"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998438" all_ntt_prob="(0,0.824504,0.998438)"> <search_score_summary> <parameter name="nss" value="0.9824"/> <parameter name="nrs" value="-0.2059"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03357.03357.2" start_scan="3357" end_scan="3357" precursor_neutral_mass="1340.5599" assumed_charge="2" index="75" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSFLIEMWTEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P37679|SGBU_ECOLI" protein_descr="Putative L-ribulose-5-phosphate 3-epimerase sgbU OS=Escherichia coli (strain K12) GN=sgbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="20" calc_neutral_pep_mass="1339.6487" massdiff="0.911" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0976" all_ntt_prob="(0.0000,0.0008,0.0976)"> <search_score_summary> <parameter name="fval" value="-0.5890"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.911"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0154528" all_ntt_prob="(0,0.000116174,0.0154528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02081.02081.2" start_scan="2081" end_scan="2081" precursor_neutral_mass="1343.7314" assumed_charge="2" index="76" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.946" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="553"/> <search_score name="nextscore" value="369"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9011,0.9992)"> <search_score_summary> <parameter name="fval" value="5.9212"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.946"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996924,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01591.01591.2" start_scan="1591" end_scan="1591" precursor_neutral_mass="1365.8132" assumed_charge="2" index="77" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAMIGDPTGALTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1364.6757" massdiff="1.137" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7373,0.9974)"> <search_score_summary> <parameter name="fval" value="5.7006"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.137"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999685" all_ntt_prob="(0,0.9587,0.999685)"> <search_score_summary> <parameter name="nss" value="0.9229"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02009.02009.2" start_scan="2009" end_scan="2009" precursor_neutral_mass="1376.5206" assumed_charge="2" index="78" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="-0.122" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" precursor_neutral_mass="1377.7169" assumed_charge="2" index="80" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5818" all_ntt_prob="(0.0000,0.0101,0.5818)"> <search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1401.7257" massdiff="1.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]EAAPAAAPAPAAGVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9927" all_ntt_prob="(0.0000,0.4990,0.9927)"> <search_score_summary> <parameter name="fval" value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF OS=Escherichia coli (strain K12) GN=yoeF" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="24" calc_neutral_pep_mass="1403.7327" massdiff="0.742" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="216"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0542" all_ntt_prob="(0.0000,0.0004,0.0542)"> <search_score_summary> <parameter name="fval" value="-0.9048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.742"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01105.01105.2" start_scan="1105" end_scan="1105" precursor_neutral_mass="1408.9231" assumed_charge="2" index="84" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.264" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" precursor_neutral_mass="1413.9465" assumed_charge="2" index="87" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="0.164" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8659" all_ntt_prob="(0.0000,0.0451,0.8659)"> <search_score_summary> <parameter name="fval" value="1.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.164"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.570663" all_ntt_prob="(0,0.00962853,0.570663)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4016"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01645.01645.2" start_scan="1645" end_scan="1645" precursor_neutral_mass="1414.8838" assumed_charge="2" index="88" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="1.133" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2257" all_ntt_prob="(0.0000,0.0021,0.2257)"> <search_score_summary> <parameter name="fval" value="0.4379"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.133"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.105917" all_ntt_prob="(0,0.000854528,0.105917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9987"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01788.01788.2" start_scan="1788" end_scan="1788" precursor_neutral_mass="1429.4936" assumed_charge="2" index="89" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.748" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" assumed_charge="2" index="108" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQLVGDDLFVTNTK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="26" calc_neutral_pep_mass="1561.8347" massdiff="1.028" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8052" all_ntt_prob="(0.0000,0.0293,0.8052)"> <search_score_summary> <parameter name="fval" value="1.9817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1582.8566" massdiff="0.010" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.4e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8934,0.9991)"> <search_score_summary> <parameter name="fval" value="5.8196"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.010"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9999" all_ntt_prob="(0,0.986928,0.9999)"> <search_score_summary> <parameter name="nss" value="0.9491"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01940.01940.2" start_scan="1940" end_scan="1940" precursor_neutral_mass="1583.6924" assumed_charge="2" index="115" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAQGTDVSFGSFGLK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ADY7|RL16_ECOLI" protein_descr="50S ribosomal protein L16 OS=Escherichia coli (strain K12) GN=rplP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1582.7987" massdiff="0.894" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9500" all_ntt_prob="(0.0000,0.1220,0.9500)"> <search_score_summary> <parameter name="fval" value="2.3270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.894"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.885516" all_ntt_prob="(0,0.0535384,0.885516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03659.03659.3" start_scan="3659" end_scan="3659" precursor_neutral_mass="1590.6650" assumed_charge="3" index="116" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NPDAQQAIFQEMAK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P43329|HRPA_ECOLI" protein_descr="ATP-dependent RNA helicase hrpA OS=Escherichia coli (strain K12) GN=hrpA" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="52" calc_neutral_pep_mass="1589.7507" massdiff="0.914" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="394"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3307" all_ntt_prob="(0.0048,0.0140,0.3307)"> <search_score_summary> <parameter name="fval" value="0.9934"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.914"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0669051" all_ntt_prob="(0.000699434,0.00205626,0.0669051)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02309.02309.2" start_scan="2309" end_scan="2309" precursor_neutral_mass="1598.2781" assumed_charge="2" index="117" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IATDPFVGNLTFFR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1596.8297" massdiff="1.448" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="476"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.039"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8239,0.9984)"> <search_score_summary> <parameter name="fval" value="6.3422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.448"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999836" all_ntt_prob="(0,0.978564,0.999836)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.497"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00784.00784.3" start_scan="784" end_scan="784" precursor_neutral_mass="1601.2434" assumed_charge="3" index="119" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGKK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="60" calc_neutral_pep_mass="1600.8687" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="393"/> <search_score name="nextscore" value="275"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9158" all_ntt_prob="(0.0954,0.2386,0.9158)"> <search_score_summary> <parameter name="fval" value="4.1164"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.910932" all_ntt_prob="(0.0902203,0.227602,0.910932)"> <search_score_summary> <parameter name="nss" value="0.5561"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02443.02443.2" start_scan="2443" end_scan="2443" precursor_neutral_mass="1603.3818" assumed_charge="2" index="120" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISLLDAFGAANDVLK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A9A6|FTSZ_ECOLI" protein_descr="Cell division protein ftsZ OS=Escherichia coli (strain K12) GN=ftsZ" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1602.8617" massdiff="0.520" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="216"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6662,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.520"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.975708" all_ntt_prob="(0,0.224582,0.975708)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01046.01046.2" start_scan="1046" end_scan="1046" precursor_neutral_mass="1633.9151" assumed_charge="2" index="122" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESAPAAAAPAAQPALAAR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="34" calc_neutral_pep_mass="1632.8587" massdiff="1.056" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="421"/> <search_score name="nextscore" value="258"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" 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massdiff="1.193" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="392"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9875" all_ntt_prob="(0.0000,0.3663,0.9875)"> <search_score_summary> <parameter name="fval" value="4.1364"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.193"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997911" all_ntt_prob="(0,0.777524,0.997911)"> <search_score_summary> <parameter name="nss" 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peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="0.268" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8545,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4132"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter 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value="0"/> <parameter name="massd" value="-0.490"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.449317" all_ntt_prob="(0,0.00593247,0.449317)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03558.03558.2" start_scan="3558" end_scan="3558" precursor_neutral_mass="1740.7058" assumed_charge="2" index="147" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDNGLAHIGVVSDGFAR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P32668|YIJF_ECOLI" protein_descr="Uncharacterized protein yijF OS=Escherichia coli (strain K12) GN=yijF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1739.8957" massdiff="0.810" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="207"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0596" all_ntt_prob="(0.0000,0.0005,0.0596)"> <search_score_summary> <parameter name="fval" value="-0.8551"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.810"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00911334" all_ntt_prob="(0,7.25898e-005,0.00911334)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02122.02122.3" start_scan="2122" end_scan="2122" precursor_neutral_mass="1742.2523" assumed_charge="3" index="148" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AWNMLVALQAGNIVAR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P39874|YBEM_ECOLI" protein_descr="Putative UPF0012 hydrolase ybeM OS=Escherichia coli (strain K12) GN=ybeM" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="60" calc_neutral_pep_mass="1741.9297" massdiff="0.323" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AWNM[147]LVALQAGNIVAR"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1861.9537" massdiff="0.249" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0636" all_ntt_prob="(0.0007,0.0020,0.0636)"> <search_score_summary> <parameter name="fval" value="2.5131"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.249"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.3" start_scan="1350" end_scan="1350" precursor_neutral_mass="2122.3963" assumed_charge="3" index="167" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GEILGGMAAVEQPEKPAAQPK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="41" tot_num_ions="80" calc_neutral_pep_mass="2120.0937" massdiff="2.303" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2691" all_ntt_prob="(0.0036,0.0105,0.2691)"> <search_score_summary> <parameter name="fval" value="0.9943"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.303"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0507847" all_ntt_prob="(0.000524751,0.00153963,0.0507847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0018"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01938.01938.3" start_scan="1938" end_scan="1938" precursor_neutral_mass="2194.0997" assumed_charge="3" index="170" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNEIETYMDGVHLICTTAK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244553" all_ntt_prob="(0.000247059,0.000714067,0.0244553)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02288.02288.3" start_scan="2288" end_scan="2288" precursor_neutral_mass="2541.6469" assumed_charge="3" index="186" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIAYDTLVMALGSTSNDFNTPGVK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P00393|DHNA_ECOLI" protein_descr="NADH dehydrogenase OS=Escherichia coli (strain K12) GN=ndh" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="92" calc_neutral_pep_mass="2541.2787" massdiff="0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result 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peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> 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<analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="291"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1423" all_ntt_prob="(0.0016,0.0048,0.1423)"> <search_score_summary> <parameter name="fval" value="0.3266"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.299"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0235102" all_ntt_prob="(0.000232506,0.000699434,0.0235102)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0667" all_ntt_prob="(0.0007,0.0021,0.0667)"> <search_score_summary> <parameter name="fval" value="0.4854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.418"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0102646" all_ntt_prob="(0.000101643,0.000305295,0.0102646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03879.03879.3" start_scan="3879" end_scan="3879" precursor_neutral_mass="1979.3631" assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00733.00733.3" start_scan="733" end_scan="733" precursor_neutral_mass="1796.1121" assumed_charge="3" index="234" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="37" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="1.163" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00752.00752.3" start_scan="752" end_scan="752" precursor_neutral_mass="1795.5034" assumed_charge="3" index="235" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="0.555" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01514.01514.2" start_scan="1514" end_scan="1514" precursor_neutral_mass="1774.0746" assumed_charge="2" index="238" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVSVPGMPVTLLNMSK" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P39220|YABP_ECOLI" protein_descr="Putative uncharacterized protein yabP OS=Escherichia coli (strain K12) GN=yabP" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="30" calc_neutral_pep_mass="1773.9367" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="KVSVPGM[147]PVTLLNM[147]SK"> <mod_aminoacid_mass position="7" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="199"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01814.01814.2" start_scan="1814" end_scan="1814" precursor_neutral_mass="1647.1708" assumed_charge="2" index="254" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STLTPVVISNMDEIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1645.8597" massdiff="1.311" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="331"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" precursor_neutral_mass="1615.3095" assumed_charge="2" index="257" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.486" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9942" all_ntt_prob="(0.0000,0.5554,0.9942)"> <search_score_summary> <parameter name="fval" value="4.8412"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.486"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999331" all_ntt_prob="(0,0.915882,0.999331)"> <search_score_summary> <parameter name="nss" value="0.9413"/> <parameter name="nrs" value="0.4914"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02150.02150.2" start_scan="2150" end_scan="2150" precursor_neutral_mass="1605.3076" assumed_charge="2" index="258" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNQIGSLTETLAAIK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1604.8777" massdiff="0.430" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="405"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8695,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5538"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.430"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999933" all_ntt_prob="(0,0.990988,0.999933)"> <search_score_summary> <parameter name="nss" value="0.9878"/> <parameter name="nrs" value="0.9299"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04168.04168.2" start_scan="4168" end_scan="4168" precursor_neutral_mass="1604.0711" assumed_charge="2" index="259" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SADLISIGPMLQGMR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A9M8|PTA_ECOLI" protein_descr="Phosphate acetyltransferase OS=Escherichia coli (strain K12) GN=pta" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="28" calc_neutral_pep_mass="1603.8057" massdiff="0.265" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SADLISIGPM[147]LQGMR"> <mod_aminoacid_mass position="10" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.93"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0770" all_ntt_prob="(0.0000,0.0006,0.0770)"> <search_score_summary> <parameter name="fval" value="-0.7185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.265"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9970" all_ntt_prob="(0.0000,0.7101,0.9970)"> <search_score_summary> <parameter name="fval" value="5.5445"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.603"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999692" all_ntt_prob="(0,0.959885,0.999692)"> <search_score_summary> <parameter name="nss" value="0.977"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03332.03332.3" start_scan="3332" end_scan="3332" precursor_neutral_mass="1576.6472" assumed_charge="3" index="261" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYFTFLMPDSLTR" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76464|YFAS_ECOLI" protein_descr="Putative UPF0192 protein yfaS OS=Escherichia coli (strain K12) GN=yfaS" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="48" calc_neutral_pep_mass="1576.7597" massdiff="-0.113" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AYFTFLM[147]PDSLTR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="359"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2212" all_ntt_prob="(0.0027,0.0081,0.2212)"> <search_score_summary> <parameter name="fval" value="1.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0395857" all_ntt_prob="(0.000392724,0.00118365,0.0395857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04318.04318.2" start_scan="4318" end_scan="4318" precursor_neutral_mass="1562.4659" assumed_charge="2" index="264" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLYAFDPALEGLR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="26" calc_neutral_pep_mass="1562.8097" massdiff="-0.344" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> 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peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60723|RL4_ECOLI" protein_descr="50S ribosomal protein L4 OS=Escherichia coli (strain K12) GN=rplD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1560.8037" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="299"/> <search_score name="nextscore" value="177"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9923" all_ntt_prob="(0.0000,0.4864,0.9923)"> <search_score_summary> <parameter name="fval" value="3.7213"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> 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<parameter name="massd" value="1.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994" all_ntt_prob="(0,0.547645,0.994)"> <search_score_summary> <parameter name="nss" value="0.9212"/> <parameter name="nrs" value="0.4957"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02260.02260.2" start_scan="2260" end_scan="2260" precursor_neutral_mass="1512.6423" assumed_charge="2" index="274" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLPIPVVITVYADR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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<search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" 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<search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" 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is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1215" all_ntt_prob="(0.0000,0.0010,0.1215)"> <search_score_summary> <parameter name="fval" value="-0.4659"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.423"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0196754" all_ntt_prob="(0,0.000145242,0.0196754)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00991.00991.2" start_scan="991" end_scan="991" precursor_neutral_mass="1358.5030" assumed_charge="2" index="303" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AEITPANADTVTR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1357.6837" massdiff="0.819" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4348" all_ntt_prob="(0.0000,0.0056,0.4348)"> <search_score_summary> <parameter name="fval" value="0.4259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.819"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.100426" all_ntt_prob="(0,0.000816568,0.100426)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00902.00902.2" start_scan="902" end_scan="902" precursor_neutral_mass="1348.3896" assumed_charge="2" index="304" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QSVDQPVQTGYK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ABB0|ATPA_ECOLI" protein_descr="ATP synthase subunit alpha OS=Escherichia coli (strain K12) GN=atpA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1348.6627" massdiff="-0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="258"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.18"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7939" all_ntt_prob="(0.0000,0.0274,0.7939)"> <search_score_summary> <parameter name="fval" value="2.1844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.454711" all_ntt_prob="(0,0.00606173,0.454711)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02093.02093.2" start_scan="2093" end_scan="2093" precursor_neutral_mass="1343.1554" assumed_charge="2" index="305" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.370" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="235"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9190,0.9994)"> <search_score_summary> <parameter name="fval" value="6.1992"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.370"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999982" all_ntt_prob="(0,0.997402,0.999982)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="1.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04623.04623.3" start_scan="4623" end_scan="4623" precursor_neutral_mass="1340.2076" assumed_charge="3" index="306" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESLPQMLRGLSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A7A7|PLSB_ECOLI" protein_descr="Glycerol-3-phosphate acyltransferase OS=Escherichia coli (strain K12) GN=plsB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="44" calc_neutral_pep_mass="1339.7277" massdiff="0.480" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]SLPQMLRGLSK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="523"/> <search_score name="nextscore" value="366"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00950.00950.2" start_scan="950" end_scan="950" precursor_neutral_mass="1338.8288" assumed_charge="2" index="307" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.187" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="191"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2941" all_ntt_prob="(0.0000,0.0030,0.2941)"> <search_score_summary> <parameter name="fval" value="0.1003"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.187"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0858112" all_ntt_prob="(0,0.000677467,0.0858112)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4915"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01200.01200.2" start_scan="1200" end_scan="1200" precursor_neutral_mass="1336.1581" assumed_charge="2" index="308" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGYAEDEVVAVSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P68066|GRCA_ECOLI" protein_descr="Autonomous glycyl radical cofactor OS=Escherichia coli (strain K12) GN=grcA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1336.6507" massdiff="-0.493" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9956" all_ntt_prob="(0.0000,0.6253,0.9956)"> <search_score_summary> <parameter name="fval" value="5.5470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.493"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998871" all_ntt_prob="(0,0.867159,0.998871)"> <search_score_summary> <parameter name="nss" value="0.8552"/> <parameter name="nrs" value="-0.0586"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00907.00907.2" start_scan="907" end_scan="907" precursor_neutral_mass="1332.0508" assumed_charge="2" index="309" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LTGMVQDAQQNK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P09394|GLPQ_ECOLI" protein_descr="Glycerophosphoryl diester phosphodiesterase OS=Escherichia coli (strain K12) GN=glpQ" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1331.6507" massdiff="0.400" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5443" all_ntt_prob="(0.0000,0.0087,0.5443)"> <search_score_summary> <parameter name="fval" value="0.6655"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.400"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.147726" all_ntt_prob="(0,0.00127198,0.147726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02813.02813.2" start_scan="2813" end_scan="2813" precursor_neutral_mass="1328.8760" assumed_charge="2" index="310" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWLQAIESVIR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1328.7087" massdiff="0.167" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" 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name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.144"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999287" all_ntt_prob="(0,0.910865,0.999287)"> <search_score_summary> <parameter name="nss" value="0.9614"/> <parameter name="nrs" value="0.4947"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01074.01074.2" start_scan="1074" end_scan="1074" precursor_neutral_mass="1315.0351" assumed_charge="2" index="313" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STCTGVEMFRK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1314.6057" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="L"/> <modification_info modified_peptide="STCTGVEMFRK"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9568" all_ntt_prob="(0.0000,0.1394,0.9568)"> <search_score_summary> <parameter name="fval" value="2.4295"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99481" all_ntt_prob="(0,0.583675,0.99481)"> <search_score_summary> <parameter name="nss" value="0.954"/> <parameter name="nrs" value="0.4454"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02285.02285.2" start_scan="2285" end_scan="2285" precursor_neutral_mass="1313.0462" assumed_charge="2" index="314" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVTDELVIALVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69441|KAD_ECOLI" protein_descr="Adenylate kinase OS=Escherichia coli (strain K12) GN=adk" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1311.8017" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="510"/> <search_score name="nextscore" value="346"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6829,0.9966)"> <search_score_summary> <parameter name="fval" value="5.4023"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999641" all_ntt_prob="(0,0.953356,0.999641)"> <search_score_summary> <parameter name="nss" value="0.9664"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01255.01255.2" start_scan="1255" end_scan="1255" precursor_neutral_mass="1289.7158" assumed_charge="2" index="317" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="0.043" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="462"/> <search_score name="nextscore" value="239"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9408,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.043"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999965" all_ntt_prob="(0,0.995646,0.999965)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.8138"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01159.01159.2" start_scan="1159" end_scan="1159" precursor_neutral_mass="1283.8468" assumed_charge="2" index="319" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGTVTPNVAEAVK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1283.7087" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6260,0.9957)"> <search_score_summary> <parameter name="fval" value="4.1973"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999909" all_ntt_prob="(0,0.987593,0.999909)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.7469"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00099.00099.2" start_scan="99" end_scan="99" precursor_neutral_mass="1274.6694" assumed_charge="2" index="320" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MATLTTGVVLLR" peptide_prev_aa="-" peptide_next_aa="W" protein="sp|P32700|YJCB_ECOLI" protein_descr="Uncharacterized protein yjcB OS=Escherichia coli (strain K12) GN=yjcB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1273.7427" massdiff="0.927" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.53"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3614" all_ntt_prob="(0.0000,0.0041,0.3614)"> <search_score_summary> <parameter name="fval" value="0.2616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.927"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.075893" all_ntt_prob="(0,0.000597075,0.075893)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01164.01164.2" start_scan="1164" end_scan="1164" precursor_neutral_mass="1272.4334" assumed_charge="2" index="321" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EHNAEVTGFIR" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01924.01924.2" start_scan="1924" end_scan="1924" precursor_neutral_mass="1261.6739" assumed_charge="2" index="324" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGNLAFLDVTGR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0ACJ8|CRP_ECOLI" protein_descr="Catabolite gene activator OS=Escherichia coli (strain K12) GN=crp" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1260.6827" massdiff="0.991" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> 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massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999978" all_ntt_prob="(0,0.997019,0.999978)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9969"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01116.01116.2" start_scan="1116" end_scan="1116" precursor_neutral_mass="1202.3451" assumed_charge="2" index="333" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGGIVLTGSAAAK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1201.6667" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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value="0.9901"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01732.01732.2" start_scan="1732" end_scan="1732" precursor_neutral_mass="1082.2839" assumed_charge="2" index="360" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="0.609" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="487"/> <search_score name="nextscore" value="363"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0055"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6892,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4472"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.609"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999659" all_ntt_prob="(0,0.955598,0.999659)"> <search_score_summary> <parameter name="nss" value="0.9854"/> <parameter name="nrs" value="0.4697"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03744.03744.3" start_scan="3744" end_scan="3744" precursor_neutral_mass="2116.0590" assumed_charge="3" index="406" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QTIVALLLSVGASSVFAAGTVK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P32688|YJBG_ECOLI" protein_descr="Uncharacterized protein yjbG OS=Escherichia coli (strain K12) GN=yjbG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2114.1987" massdiff="1.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]TIVALLLSVGASSVFAAGTVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="325"/> <search_score name="nextscore" value="280"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01799.01799.2" start_scan="1799" end_scan="1799" precursor_neutral_mass="1598.9006" assumed_charge="2" index="462" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGQFNLDGINPAPR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1597.8217" massdiff="1.079" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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value="217"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9192" all_ntt_prob="(0.0000,0.0768,0.9192)"> <search_score_summary> <parameter name="fval" value="2.9226"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.278"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.702196" all_ntt_prob="(0,0.01695,0.702196)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4086"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" 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<search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> 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<parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter 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num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" 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value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" 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<search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> 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massdiff="1.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="226"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0000,0.0048,0.3994)"> <search_score_summary> <parameter name="fval" value="0.8922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.728813" all_ntt_prob="(0,0.0191193,0.728813)"> <search_score_summary> <parameter name="nss" 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9979" all_ntt_prob="(0.0000,0.7758,0.9979)"> <search_score_summary> <parameter name="fval" value="4.8668"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.957"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999666" all_ntt_prob="(0,0.95616,0.999666)"> <search_score_summary> <parameter name="nss" value="0.9802"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.047"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9953" all_ntt_prob="(0.0000,0.6064,0.9953)"> <search_score_summary> <parameter name="fval" value="4.1259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.986"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99927" all_ntt_prob="(0,0.908704,0.99927)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01596.01596.2" start_scan="1596" end_scan="1596" precursor_neutral_mass="1305.5426" assumed_charge="2" index="523" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGVLTGLPDAYGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1304.6727" massdiff="0.870" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="181"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7655,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8096"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.870"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999877" all_ntt_prob="(0,0.983195,0.999877)"> <search_score_summary> <parameter name="nss" value="0.9895"/> <parameter name="nrs" value="0.991099"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02170.02170.2" start_scan="2170" end_scan="2170" precursor_neutral_mass="1303.1952" assumed_charge="2" index="525" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTLTAAITTVLAK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" 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<interprophet_result probability="0.995915" all_ntt_prob="(0,0.640896,0.995915)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01463.01463.2" start_scan="1463" end_scan="1463" precursor_neutral_mass="1243.9372" assumed_charge="2" index="538" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> 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value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9912" all_ntt_prob="(0.0000,0.4509,0.9912)"> <search_score_summary> <parameter name="fval" value="3.6074"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.704"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998904" all_ntt_prob="(0,0.869167,0.998904)"> <search_score_summary> <parameter name="nss" value="0.9166"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0676934" all_ntt_prob="(0,0.000529298,0.0676934)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01541.01541.2" start_scan="1541" end_scan="1541" precursor_neutral_mass="1171.0868" assumed_charge="2" index="552" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1168.6567" massdiff="0.783" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9343" all_ntt_prob="(0.0000,0.0941,0.9343)"> <search_score_summary> <parameter name="fval" value="2.1367"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.783"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9905" 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value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter 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value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" 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coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.716" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="571"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9164,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1549"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.716"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> 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value="555"/> <search_score name="hits_mean" value="0.212"/> <search_score name="hits_stdev" value="0.072"/> <search_score name="fval" value="0.358"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="121523207"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="9"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0953" all_ntt_prob="(0.0000,0.0953,0.0801)"> <search_score_summary> <parameter name="fval" value="0.3580"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.103"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0150563" all_ntt_prob="(0,0.0150563,0.0124784)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01705.01705.3" start_scan="01705" end_scan="01705" precursor_neutral_mass="2046.4216" assumed_charge="3" index="391" retention_time_sec="2582.34"> <search_result> <search_hit hit_rank="1" peptide="FTAEGVQEIDYKDIATLK" peptide_prev_aa="R" peptide_next_aa="N" protein="tr|C3SFP7|C3SFP7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2040.0415" massdiff="+6.3801" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.756"/> <search_score name="delta" value="0.230"/> <search_score name="dot_bias" value="0.340"/> <search_score name="precursor_mz_diff" value="2.127"/> <search_score name="hits_num" value="570"/> <search_score 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<search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.645"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="79463266"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="6"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9527" all_ntt_prob="(0.0000,0.9527,0.9522)"> <search_score_summary> <parameter name="fval" value="0.6450"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.378"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.745087" all_ntt_prob="(0,0.745087,0.742984)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01081.01081.2" start_scan="01081" end_scan="01081" precursor_neutral_mass="1376.4788" assumed_charge="2" index="402" retention_time_sec="1869.33"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SIC2|C3SIC2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1375.7095" massdiff="+0.7693" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.894"/> <search_score name="delta" value="0.468"/> <search_score name="dot_bias" value="0.164"/> <search_score name="precursor_mz_diff" value="0.385"/> <search_score name="hits_num" value="566"/> <search_score 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<search_score name="fval" value="0.614"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="267381044"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2609" all_ntt_prob="(0.0000,0.2631,0.2609)"> <search_score_summary> <parameter name="fval" value="0.6140"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.315997" all_ntt_prob="(0,0.318462,0.315997)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9897"/> <parameter 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9971"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01908.01908.4" start_scan="01908" end_scan="01908" precursor_neutral_mass="2986.6020" assumed_charge="4" index="546" retention_time_sec="2807.49"> <search_result> <search_hit hit_rank="1" peptide="LTNGFEVTSYIGGEGHNLQEHSVILIR" peptide_prev_aa="R" peptide_next_aa="G" protein="tr|Q8KPF1|Q8KPF1_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2982.5199" massdiff="+4.0821" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.591"/> <search_score name="delta" value="0.044"/> <search_score name="dot_bias" value="0.215"/> <search_score 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<interprophet_result probability="0.0609036" all_ntt_prob="(0,0.206168,0.0609036)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01442.01442.3" start_scan="01442" end_scan="01442" precursor_neutral_mass="2240.0130" assumed_charge="3" index="547" retention_time_sec="2288.62"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+1.8704" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.916"/> <search_score name="delta" value="0.502"/> <search_score name="dot_bias" value="0.197"/> <search_score 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.997"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01458.01458.3" start_scan="01458" end_scan="01458" precursor_neutral_mass="2240.5490" assumed_charge="3" index="548" retention_time_sec="2309.63"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+2.4063" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.857"/> <search_score name="delta" value="0.433"/> <search_score name="dot_bias" value="0.190"/> <search_score name="precursor_mz_diff" value="0.802"/> <search_score name="hits_num" value="485"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.716"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7160"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.406"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" 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value="497"/> <search_score name="hits_mean" value="0.177"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.548"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9995,0.9994)"> <search_score_summary> <parameter name="fval" value="0.5480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.433"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999544" all_ntt_prob="(0,0.99962,0.999544)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter 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value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> 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modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="234"/> <search_score name="nextscore" value="213"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0501" all_ntt_prob="(0.0000,0.0004,0.0501)"> <search_score_summary> <parameter name="fval" value="-0.9458"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> 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<search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" 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value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00920.00920.2" start_scan="920" end_scan="920" precursor_neutral_mass="1239.1063" assumed_charge="2" index="51" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.554" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7880,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.554"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999798" all_ntt_prob="(0,0.973586,0.999798)"> <search_score_summary> <parameter name="nss" value="0.9858"/> <parameter name="nrs" value="0.4897"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> 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index="53" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.345" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="165"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1113" all_ntt_prob="(0.0000,0.0009,0.1113)"> <search_score_summary> <parameter name="fval" value="-0.5156"/> <parameter 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num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" 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value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" 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all_ntt_prob="(0,0.0414221,0.855197)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00944.00944.2" start_scan="944" end_scan="944" precursor_neutral_mass="1339.4037" assumed_charge="2" index="74" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.762" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9915" all_ntt_prob="(0.0000,0.4616,0.9915)"> <search_score_summary> <parameter name="fval" value="3.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.762"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998438" all_ntt_prob="(0,0.824504,0.998438)"> <search_score_summary> <parameter name="nss" value="0.9824"/> <parameter name="nrs" value="-0.2059"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03357.03357.2" start_scan="3357" end_scan="3357" precursor_neutral_mass="1340.5599" assumed_charge="2" index="75" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSFLIEMWTEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P37679|SGBU_ECOLI" protein_descr="Putative L-ribulose-5-phosphate 3-epimerase sgbU OS=Escherichia coli (strain K12) GN=sgbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="20" calc_neutral_pep_mass="1339.6487" massdiff="0.911" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0976" all_ntt_prob="(0.0000,0.0008,0.0976)"> <search_score_summary> <parameter name="fval" value="-0.5890"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.911"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0154528" all_ntt_prob="(0,0.000116174,0.0154528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02081.02081.2" start_scan="2081" end_scan="2081" precursor_neutral_mass="1343.7314" assumed_charge="2" index="76" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.946" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="553"/> <search_score name="nextscore" value="369"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9011,0.9992)"> <search_score_summary> <parameter name="fval" value="5.9212"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.946"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996924,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01591.01591.2" start_scan="1591" end_scan="1591" precursor_neutral_mass="1365.8132" assumed_charge="2" index="77" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAMIGDPTGALTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1364.6757" massdiff="1.137" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7373,0.9974)"> <search_score_summary> <parameter name="fval" value="5.7006"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.137"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999685" all_ntt_prob="(0,0.9587,0.999685)"> <search_score_summary> <parameter name="nss" value="0.9229"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02009.02009.2" start_scan="2009" end_scan="2009" precursor_neutral_mass="1376.5206" assumed_charge="2" index="78" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="-0.122" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" precursor_neutral_mass="1377.7169" assumed_charge="2" index="80" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5818" all_ntt_prob="(0.0000,0.0101,0.5818)"> <search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1401.7257" massdiff="1.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]EAAPAAAPAPAAGVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9927" all_ntt_prob="(0.0000,0.4990,0.9927)"> <search_score_summary> <parameter name="fval" value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF OS=Escherichia coli (strain K12) GN=yoeF" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="24" calc_neutral_pep_mass="1403.7327" massdiff="0.742" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="216"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0542" all_ntt_prob="(0.0000,0.0004,0.0542)"> <search_score_summary> <parameter name="fval" value="-0.9048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.742"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01105.01105.2" start_scan="1105" end_scan="1105" precursor_neutral_mass="1408.9231" assumed_charge="2" index="84" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.264" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" precursor_neutral_mass="1413.9465" assumed_charge="2" index="87" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="0.164" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8659" all_ntt_prob="(0.0000,0.0451,0.8659)"> <search_score_summary> <parameter name="fval" value="1.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.164"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.570663" all_ntt_prob="(0,0.00962853,0.570663)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4016"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01645.01645.2" start_scan="1645" end_scan="1645" precursor_neutral_mass="1414.8838" assumed_charge="2" index="88" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="1.133" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2257" all_ntt_prob="(0.0000,0.0021,0.2257)"> <search_score_summary> <parameter name="fval" value="0.4379"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.133"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.105917" all_ntt_prob="(0,0.000854528,0.105917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9987"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01788.01788.2" start_scan="1788" end_scan="1788" precursor_neutral_mass="1429.4936" assumed_charge="2" index="89" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.748" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" assumed_charge="2" index="108" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQLVGDDLFVTNTK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="26" calc_neutral_pep_mass="1561.8347" massdiff="1.028" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8052" all_ntt_prob="(0.0000,0.0293,0.8052)"> <search_score_summary> <parameter name="fval" value="1.9817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1582.8566" massdiff="0.010" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.4e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8934,0.9991)"> <search_score_summary> <parameter name="fval" value="5.8196"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.010"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9999" all_ntt_prob="(0,0.986928,0.9999)"> <search_score_summary> <parameter name="nss" value="0.9491"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01940.01940.2" start_scan="1940" end_scan="1940" precursor_neutral_mass="1583.6924" assumed_charge="2" index="115" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAQGTDVSFGSFGLK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ADY7|RL16_ECOLI" protein_descr="50S ribosomal protein L16 OS=Escherichia coli (strain K12) GN=rplP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1582.7987" massdiff="0.894" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9500" all_ntt_prob="(0.0000,0.1220,0.9500)"> <search_score_summary> <parameter name="fval" value="2.3270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.894"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.885516" all_ntt_prob="(0,0.0535384,0.885516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03659.03659.3" start_scan="3659" end_scan="3659" precursor_neutral_mass="1590.6650" assumed_charge="3" index="116" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NPDAQQAIFQEMAK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P43329|HRPA_ECOLI" protein_descr="ATP-dependent RNA helicase hrpA OS=Escherichia coli (strain K12) GN=hrpA" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="52" calc_neutral_pep_mass="1589.7507" massdiff="0.914" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="394"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3307" all_ntt_prob="(0.0048,0.0140,0.3307)"> <search_score_summary> <parameter name="fval" value="0.9934"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.914"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0669051" all_ntt_prob="(0.000699434,0.00205626,0.0669051)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02309.02309.2" start_scan="2309" end_scan="2309" precursor_neutral_mass="1598.2781" assumed_charge="2" index="117" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IATDPFVGNLTFFR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1596.8297" massdiff="1.448" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="476"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.039"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8239,0.9984)"> <search_score_summary> <parameter name="fval" value="6.3422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.448"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999836" all_ntt_prob="(0,0.978564,0.999836)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.497"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00784.00784.3" start_scan="784" end_scan="784" precursor_neutral_mass="1601.2434" assumed_charge="3" index="119" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGKK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="60" calc_neutral_pep_mass="1600.8687" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="393"/> <search_score name="nextscore" value="275"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9158" all_ntt_prob="(0.0954,0.2386,0.9158)"> <search_score_summary> <parameter name="fval" value="4.1164"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.910932" all_ntt_prob="(0.0902203,0.227602,0.910932)"> <search_score_summary> <parameter name="nss" value="0.5561"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02443.02443.2" start_scan="2443" end_scan="2443" precursor_neutral_mass="1603.3818" assumed_charge="2" index="120" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISLLDAFGAANDVLK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A9A6|FTSZ_ECOLI" protein_descr="Cell division protein ftsZ OS=Escherichia coli (strain K12) GN=ftsZ" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1602.8617" massdiff="0.520" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="216"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6662,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.520"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.975708" all_ntt_prob="(0,0.224582,0.975708)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01046.01046.2" start_scan="1046" end_scan="1046" precursor_neutral_mass="1633.9151" assumed_charge="2" index="122" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESAPAAAAPAAQPALAAR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="34" calc_neutral_pep_mass="1632.8587" massdiff="1.056" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="421"/> <search_score name="nextscore" value="258"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" 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massdiff="1.193" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="392"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9875" all_ntt_prob="(0.0000,0.3663,0.9875)"> <search_score_summary> <parameter name="fval" value="4.1364"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.193"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997911" all_ntt_prob="(0,0.777524,0.997911)"> <search_score_summary> <parameter name="nss" 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peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="0.268" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8545,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4132"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter 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value="0"/> <parameter name="massd" value="-0.490"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.449317" all_ntt_prob="(0,0.00593247,0.449317)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03558.03558.2" start_scan="3558" end_scan="3558" precursor_neutral_mass="1740.7058" assumed_charge="2" index="147" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDNGLAHIGVVSDGFAR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P32668|YIJF_ECOLI" protein_descr="Uncharacterized protein yijF OS=Escherichia coli (strain K12) GN=yijF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1739.8957" massdiff="0.810" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="207"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0596" all_ntt_prob="(0.0000,0.0005,0.0596)"> <search_score_summary> <parameter name="fval" value="-0.8551"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.810"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00911334" all_ntt_prob="(0,7.25898e-005,0.00911334)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02122.02122.3" start_scan="2122" end_scan="2122" precursor_neutral_mass="1742.2523" assumed_charge="3" index="148" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AWNMLVALQAGNIVAR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P39874|YBEM_ECOLI" protein_descr="Putative UPF0012 hydrolase ybeM OS=Escherichia coli (strain K12) GN=ybeM" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="60" calc_neutral_pep_mass="1741.9297" massdiff="0.323" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AWNM[147]LVALQAGNIVAR"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1861.9537" massdiff="0.249" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0636" all_ntt_prob="(0.0007,0.0020,0.0636)"> <search_score_summary> <parameter name="fval" value="2.5131"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.249"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.3" start_scan="1350" end_scan="1350" precursor_neutral_mass="2122.3963" assumed_charge="3" index="167" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GEILGGMAAVEQPEKPAAQPK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="41" tot_num_ions="80" calc_neutral_pep_mass="2120.0937" massdiff="2.303" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2691" all_ntt_prob="(0.0036,0.0105,0.2691)"> <search_score_summary> <parameter name="fval" value="0.9943"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.303"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0507847" all_ntt_prob="(0.000524751,0.00153963,0.0507847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0018"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01938.01938.3" start_scan="1938" end_scan="1938" precursor_neutral_mass="2194.0997" assumed_charge="3" index="170" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNEIETYMDGVHLICTTAK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244553" all_ntt_prob="(0.000247059,0.000714067,0.0244553)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02288.02288.3" start_scan="2288" end_scan="2288" precursor_neutral_mass="2541.6469" assumed_charge="3" index="186" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIAYDTLVMALGSTSNDFNTPGVK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P00393|DHNA_ECOLI" protein_descr="NADH dehydrogenase OS=Escherichia coli (strain K12) GN=ndh" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="92" calc_neutral_pep_mass="2541.2787" massdiff="0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result 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peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> 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<analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="291"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1423" all_ntt_prob="(0.0016,0.0048,0.1423)"> <search_score_summary> <parameter name="fval" value="0.3266"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.299"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0235102" all_ntt_prob="(0.000232506,0.000699434,0.0235102)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0667" all_ntt_prob="(0.0007,0.0021,0.0667)"> <search_score_summary> <parameter name="fval" value="0.4854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.418"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0102646" all_ntt_prob="(0.000101643,0.000305295,0.0102646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03879.03879.3" start_scan="3879" end_scan="3879" precursor_neutral_mass="1979.3631" assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00733.00733.3" start_scan="733" end_scan="733" precursor_neutral_mass="1796.1121" assumed_charge="3" index="234" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="37" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="1.163" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00752.00752.3" start_scan="752" end_scan="752" precursor_neutral_mass="1795.5034" assumed_charge="3" index="235" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="0.555" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01514.01514.2" start_scan="1514" end_scan="1514" precursor_neutral_mass="1774.0746" assumed_charge="2" index="238" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVSVPGMPVTLLNMSK" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P39220|YABP_ECOLI" protein_descr="Putative uncharacterized protein yabP OS=Escherichia coli (strain K12) GN=yabP" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="30" calc_neutral_pep_mass="1773.9367" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="KVSVPGM[147]PVTLLNM[147]SK"> <mod_aminoacid_mass position="7" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="199"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01814.01814.2" start_scan="1814" end_scan="1814" precursor_neutral_mass="1647.1708" assumed_charge="2" index="254" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STLTPVVISNMDEIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1645.8597" massdiff="1.311" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="331"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" precursor_neutral_mass="1615.3095" assumed_charge="2" index="257" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.486" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9942" all_ntt_prob="(0.0000,0.5554,0.9942)"> <search_score_summary> <parameter name="fval" value="4.8412"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.486"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999331" all_ntt_prob="(0,0.915882,0.999331)"> <search_score_summary> <parameter name="nss" value="0.9413"/> <parameter name="nrs" value="0.4914"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02150.02150.2" start_scan="2150" end_scan="2150" precursor_neutral_mass="1605.3076" assumed_charge="2" index="258" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNQIGSLTETLAAIK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1604.8777" massdiff="0.430" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="405"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8695,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5538"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.430"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999933" all_ntt_prob="(0,0.990988,0.999933)"> <search_score_summary> <parameter name="nss" value="0.9878"/> <parameter name="nrs" value="0.9299"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04168.04168.2" start_scan="4168" end_scan="4168" precursor_neutral_mass="1604.0711" assumed_charge="2" index="259" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SADLISIGPMLQGMR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A9M8|PTA_ECOLI" protein_descr="Phosphate acetyltransferase OS=Escherichia coli (strain K12) GN=pta" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="28" calc_neutral_pep_mass="1603.8057" massdiff="0.265" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SADLISIGPM[147]LQGMR"> <mod_aminoacid_mass position="10" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.93"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0770" all_ntt_prob="(0.0000,0.0006,0.0770)"> <search_score_summary> <parameter name="fval" value="-0.7185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.265"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9970" all_ntt_prob="(0.0000,0.7101,0.9970)"> <search_score_summary> <parameter name="fval" value="5.5445"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.603"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999692" all_ntt_prob="(0,0.959885,0.999692)"> <search_score_summary> <parameter name="nss" value="0.977"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03332.03332.3" start_scan="3332" end_scan="3332" precursor_neutral_mass="1576.6472" assumed_charge="3" index="261" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYFTFLMPDSLTR" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76464|YFAS_ECOLI" protein_descr="Putative UPF0192 protein yfaS OS=Escherichia coli (strain K12) GN=yfaS" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="48" calc_neutral_pep_mass="1576.7597" massdiff="-0.113" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AYFTFLM[147]PDSLTR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="359"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2212" all_ntt_prob="(0.0027,0.0081,0.2212)"> <search_score_summary> <parameter name="fval" value="1.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0395857" all_ntt_prob="(0.000392724,0.00118365,0.0395857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04318.04318.2" start_scan="4318" end_scan="4318" precursor_neutral_mass="1562.4659" assumed_charge="2" index="264" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLYAFDPALEGLR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="26" calc_neutral_pep_mass="1562.8097" massdiff="-0.344" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> 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peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60723|RL4_ECOLI" protein_descr="50S ribosomal protein L4 OS=Escherichia coli (strain K12) GN=rplD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1560.8037" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="299"/> <search_score name="nextscore" value="177"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9923" all_ntt_prob="(0.0000,0.4864,0.9923)"> <search_score_summary> <parameter name="fval" value="3.7213"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> 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<parameter name="massd" value="1.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994" all_ntt_prob="(0,0.547645,0.994)"> <search_score_summary> <parameter name="nss" value="0.9212"/> <parameter name="nrs" value="0.4957"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02260.02260.2" start_scan="2260" end_scan="2260" precursor_neutral_mass="1512.6423" assumed_charge="2" index="274" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLPIPVVITVYADR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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<search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" 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<search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" 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is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1215" all_ntt_prob="(0.0000,0.0010,0.1215)"> <search_score_summary> <parameter name="fval" value="-0.4659"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.423"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0196754" all_ntt_prob="(0,0.000145242,0.0196754)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00991.00991.2" start_scan="991" end_scan="991" precursor_neutral_mass="1358.5030" assumed_charge="2" index="303" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AEITPANADTVTR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1357.6837" massdiff="0.819" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4348" all_ntt_prob="(0.0000,0.0056,0.4348)"> <search_score_summary> <parameter name="fval" value="0.4259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.819"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.100426" all_ntt_prob="(0,0.000816568,0.100426)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00902.00902.2" start_scan="902" end_scan="902" precursor_neutral_mass="1348.3896" assumed_charge="2" index="304" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QSVDQPVQTGYK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ABB0|ATPA_ECOLI" protein_descr="ATP synthase subunit alpha OS=Escherichia coli (strain K12) GN=atpA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1348.6627" massdiff="-0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="258"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.18"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7939" all_ntt_prob="(0.0000,0.0274,0.7939)"> <search_score_summary> <parameter name="fval" value="2.1844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.454711" all_ntt_prob="(0,0.00606173,0.454711)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02093.02093.2" start_scan="2093" end_scan="2093" precursor_neutral_mass="1343.1554" assumed_charge="2" index="305" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.370" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="235"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9190,0.9994)"> <search_score_summary> <parameter name="fval" value="6.1992"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.370"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999982" all_ntt_prob="(0,0.997402,0.999982)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="1.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04623.04623.3" start_scan="4623" end_scan="4623" precursor_neutral_mass="1340.2076" assumed_charge="3" index="306" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESLPQMLRGLSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A7A7|PLSB_ECOLI" protein_descr="Glycerol-3-phosphate acyltransferase OS=Escherichia coli (strain K12) GN=plsB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="44" calc_neutral_pep_mass="1339.7277" massdiff="0.480" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]SLPQMLRGLSK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="523"/> <search_score name="nextscore" value="366"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00950.00950.2" start_scan="950" end_scan="950" precursor_neutral_mass="1338.8288" assumed_charge="2" index="307" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.187" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="191"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2941" all_ntt_prob="(0.0000,0.0030,0.2941)"> <search_score_summary> <parameter name="fval" value="0.1003"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.187"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0858112" all_ntt_prob="(0,0.000677467,0.0858112)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4915"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01200.01200.2" start_scan="1200" end_scan="1200" precursor_neutral_mass="1336.1581" assumed_charge="2" index="308" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGYAEDEVVAVSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P68066|GRCA_ECOLI" protein_descr="Autonomous glycyl radical cofactor OS=Escherichia coli (strain K12) GN=grcA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1336.6507" massdiff="-0.493" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9956" all_ntt_prob="(0.0000,0.6253,0.9956)"> <search_score_summary> <parameter name="fval" value="5.5470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.493"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998871" all_ntt_prob="(0,0.867159,0.998871)"> <search_score_summary> <parameter name="nss" value="0.8552"/> <parameter name="nrs" value="-0.0586"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00907.00907.2" start_scan="907" end_scan="907" precursor_neutral_mass="1332.0508" assumed_charge="2" index="309" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LTGMVQDAQQNK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P09394|GLPQ_ECOLI" protein_descr="Glycerophosphoryl diester phosphodiesterase OS=Escherichia coli (strain K12) GN=glpQ" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1331.6507" massdiff="0.400" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5443" all_ntt_prob="(0.0000,0.0087,0.5443)"> <search_score_summary> <parameter name="fval" value="0.6655"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.400"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.147726" all_ntt_prob="(0,0.00127198,0.147726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02813.02813.2" start_scan="2813" end_scan="2813" precursor_neutral_mass="1328.8760" assumed_charge="2" index="310" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWLQAIESVIR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1328.7087" massdiff="0.167" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" 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name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.144"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999287" all_ntt_prob="(0,0.910865,0.999287)"> <search_score_summary> <parameter name="nss" value="0.9614"/> <parameter name="nrs" value="0.4947"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01074.01074.2" start_scan="1074" end_scan="1074" precursor_neutral_mass="1315.0351" assumed_charge="2" index="313" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STCTGVEMFRK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1314.6057" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="L"/> <modification_info modified_peptide="STCTGVEMFRK"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9568" all_ntt_prob="(0.0000,0.1394,0.9568)"> <search_score_summary> <parameter name="fval" value="2.4295"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99481" all_ntt_prob="(0,0.583675,0.99481)"> <search_score_summary> <parameter name="nss" value="0.954"/> <parameter name="nrs" value="0.4454"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02285.02285.2" start_scan="2285" end_scan="2285" precursor_neutral_mass="1313.0462" assumed_charge="2" index="314" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVTDELVIALVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69441|KAD_ECOLI" protein_descr="Adenylate kinase OS=Escherichia coli (strain K12) GN=adk" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1311.8017" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="510"/> <search_score name="nextscore" value="346"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6829,0.9966)"> <search_score_summary> <parameter name="fval" value="5.4023"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999641" all_ntt_prob="(0,0.953356,0.999641)"> <search_score_summary> <parameter name="nss" value="0.9664"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01255.01255.2" start_scan="1255" end_scan="1255" precursor_neutral_mass="1289.7158" assumed_charge="2" index="317" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="0.043" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="462"/> <search_score name="nextscore" value="239"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9408,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.043"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999965" all_ntt_prob="(0,0.995646,0.999965)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.8138"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01159.01159.2" start_scan="1159" end_scan="1159" precursor_neutral_mass="1283.8468" assumed_charge="2" index="319" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGTVTPNVAEAVK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1283.7087" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6260,0.9957)"> <search_score_summary> <parameter name="fval" value="4.1973"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999909" all_ntt_prob="(0,0.987593,0.999909)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.7469"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00099.00099.2" start_scan="99" end_scan="99" precursor_neutral_mass="1274.6694" assumed_charge="2" index="320" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MATLTTGVVLLR" peptide_prev_aa="-" peptide_next_aa="W" protein="sp|P32700|YJCB_ECOLI" protein_descr="Uncharacterized protein yjcB OS=Escherichia coli (strain K12) GN=yjcB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1273.7427" massdiff="0.927" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.53"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3614" all_ntt_prob="(0.0000,0.0041,0.3614)"> <search_score_summary> <parameter name="fval" value="0.2616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.927"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.075893" all_ntt_prob="(0,0.000597075,0.075893)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01164.01164.2" start_scan="1164" end_scan="1164" precursor_neutral_mass="1272.4334" assumed_charge="2" index="321" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EHNAEVTGFIR" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01924.01924.2" start_scan="1924" end_scan="1924" precursor_neutral_mass="1261.6739" assumed_charge="2" index="324" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGNLAFLDVTGR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0ACJ8|CRP_ECOLI" protein_descr="Catabolite gene activator OS=Escherichia coli (strain K12) GN=crp" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1260.6827" massdiff="0.991" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> 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massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999978" all_ntt_prob="(0,0.997019,0.999978)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9969"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01116.01116.2" start_scan="1116" end_scan="1116" precursor_neutral_mass="1202.3451" assumed_charge="2" index="333" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGGIVLTGSAAAK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1201.6667" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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value="0.9901"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01732.01732.2" start_scan="1732" end_scan="1732" precursor_neutral_mass="1082.2839" assumed_charge="2" index="360" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="0.609" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="487"/> <search_score name="nextscore" value="363"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0055"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6892,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4472"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.609"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999659" all_ntt_prob="(0,0.955598,0.999659)"> <search_score_summary> <parameter name="nss" value="0.9854"/> <parameter name="nrs" value="0.4697"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03744.03744.3" start_scan="3744" end_scan="3744" precursor_neutral_mass="2116.0590" assumed_charge="3" index="406" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QTIVALLLSVGASSVFAAGTVK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P32688|YJBG_ECOLI" protein_descr="Uncharacterized protein yjbG OS=Escherichia coli (strain K12) GN=yjbG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2114.1987" massdiff="1.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]TIVALLLSVGASSVFAAGTVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="325"/> <search_score name="nextscore" value="280"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01799.01799.2" start_scan="1799" end_scan="1799" precursor_neutral_mass="1598.9006" assumed_charge="2" index="462" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGQFNLDGINPAPR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1597.8217" massdiff="1.079" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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value="217"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9192" all_ntt_prob="(0.0000,0.0768,0.9192)"> <search_score_summary> <parameter name="fval" value="2.9226"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.278"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.702196" all_ntt_prob="(0,0.01695,0.702196)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4086"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" 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<search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> 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<parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter 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num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" 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value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" 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<search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> 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massdiff="1.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="226"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0000,0.0048,0.3994)"> <search_score_summary> <parameter name="fval" value="0.8922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.728813" all_ntt_prob="(0,0.0191193,0.728813)"> <search_score_summary> <parameter name="nss" 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9979" all_ntt_prob="(0.0000,0.7758,0.9979)"> <search_score_summary> <parameter name="fval" value="4.8668"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.957"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999666" all_ntt_prob="(0,0.95616,0.999666)"> <search_score_summary> <parameter name="nss" value="0.9802"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.047"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9953" all_ntt_prob="(0.0000,0.6064,0.9953)"> <search_score_summary> <parameter name="fval" value="4.1259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.986"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99927" all_ntt_prob="(0,0.908704,0.99927)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01596.01596.2" start_scan="1596" end_scan="1596" precursor_neutral_mass="1305.5426" assumed_charge="2" index="523" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGVLTGLPDAYGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1304.6727" massdiff="0.870" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="181"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7655,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8096"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.870"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999877" all_ntt_prob="(0,0.983195,0.999877)"> <search_score_summary> <parameter name="nss" value="0.9895"/> <parameter name="nrs" value="0.991099"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02170.02170.2" start_scan="2170" end_scan="2170" precursor_neutral_mass="1303.1952" assumed_charge="2" index="525" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTLTAAITTVLAK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" 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<interprophet_result probability="0.995915" all_ntt_prob="(0,0.640896,0.995915)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01463.01463.2" start_scan="1463" end_scan="1463" precursor_neutral_mass="1243.9372" assumed_charge="2" index="538" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> 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value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9912" all_ntt_prob="(0.0000,0.4509,0.9912)"> <search_score_summary> <parameter name="fval" value="3.6074"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.704"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998904" all_ntt_prob="(0,0.869167,0.998904)"> <search_score_summary> <parameter name="nss" value="0.9166"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0676934" all_ntt_prob="(0,0.000529298,0.0676934)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01541.01541.2" start_scan="1541" end_scan="1541" precursor_neutral_mass="1171.0868" assumed_charge="2" index="552" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1168.6567" massdiff="0.783" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9343" all_ntt_prob="(0.0000,0.0941,0.9343)"> <search_score_summary> <parameter name="fval" value="2.1367"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.783"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9905" 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value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter 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value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" 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coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.716" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="571"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9164,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1549"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.716"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> 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value="555"/> <search_score name="hits_mean" value="0.212"/> <search_score name="hits_stdev" value="0.072"/> <search_score name="fval" value="0.358"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="121523207"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="9"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0953" all_ntt_prob="(0.0000,0.0953,0.0801)"> <search_score_summary> <parameter name="fval" value="0.3580"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.103"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0150563" all_ntt_prob="(0,0.0150563,0.0124784)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01705.01705.3" start_scan="01705" end_scan="01705" precursor_neutral_mass="2046.4216" assumed_charge="3" index="391" retention_time_sec="2582.34"> <search_result> <search_hit hit_rank="1" peptide="FTAEGVQEIDYKDIATLK" peptide_prev_aa="R" peptide_next_aa="N" protein="tr|C3SFP7|C3SFP7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2040.0415" massdiff="+6.3801" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.756"/> <search_score name="delta" value="0.230"/> <search_score name="dot_bias" value="0.340"/> <search_score name="precursor_mz_diff" value="2.127"/> <search_score name="hits_num" value="570"/> <search_score 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<search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.645"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="79463266"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="6"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9527" all_ntt_prob="(0.0000,0.9527,0.9522)"> <search_score_summary> <parameter name="fval" value="0.6450"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.378"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.745087" all_ntt_prob="(0,0.745087,0.742984)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01081.01081.2" start_scan="01081" end_scan="01081" precursor_neutral_mass="1376.4788" assumed_charge="2" index="402" retention_time_sec="1869.33"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SIC2|C3SIC2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1375.7095" massdiff="+0.7693" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.894"/> <search_score name="delta" value="0.468"/> <search_score name="dot_bias" value="0.164"/> <search_score name="precursor_mz_diff" value="0.385"/> <search_score name="hits_num" value="566"/> <search_score 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<search_score name="fval" value="0.614"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="267381044"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2609" all_ntt_prob="(0.0000,0.2631,0.2609)"> <search_score_summary> <parameter name="fval" value="0.6140"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.315997" all_ntt_prob="(0,0.318462,0.315997)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9897"/> <parameter 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9971"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01908.01908.4" start_scan="01908" end_scan="01908" precursor_neutral_mass="2986.6020" assumed_charge="4" index="546" retention_time_sec="2807.49"> <search_result> <search_hit hit_rank="1" peptide="LTNGFEVTSYIGGEGHNLQEHSVILIR" peptide_prev_aa="R" peptide_next_aa="G" protein="tr|Q8KPF1|Q8KPF1_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2982.5199" massdiff="+4.0821" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.591"/> <search_score name="delta" value="0.044"/> <search_score name="dot_bias" value="0.215"/> <search_score 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<interprophet_result probability="0.0609036" all_ntt_prob="(0,0.206168,0.0609036)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01442.01442.3" start_scan="01442" end_scan="01442" precursor_neutral_mass="2240.0130" assumed_charge="3" index="547" retention_time_sec="2288.62"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+1.8704" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.916"/> <search_score name="delta" value="0.502"/> <search_score name="dot_bias" value="0.197"/> <search_score 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.997"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01458.01458.3" start_scan="01458" end_scan="01458" precursor_neutral_mass="2240.5490" assumed_charge="3" index="548" retention_time_sec="2309.63"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+2.4063" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.857"/> <search_score name="delta" value="0.433"/> <search_score name="dot_bias" value="0.190"/> <search_score name="precursor_mz_diff" value="0.802"/> <search_score name="hits_num" value="485"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.716"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7160"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.406"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" 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value="497"/> <search_score name="hits_mean" value="0.177"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.548"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9995,0.9994)"> <search_score_summary> <parameter name="fval" value="0.5480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.433"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999544" all_ntt_prob="(0,0.99962,0.999544)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter 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value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> 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modification mass" value=""/> <parameter name="protein, N-terminal residue modification mass" value=""/> <parameter name="protein, cleavage site" value="[RK]|{P}"/> <parameter name="protein, homolog management" value="no"/> <parameter name="protein, modified residue mass file" value=""/> <parameter name="protein, taxon" value="mydatabase"/> <parameter name="refine" value="no"/> <parameter name="refine, maximum valid expectation value" value="0.1"/> <parameter name="refine, sequence path" value=""/> <parameter name="refine, spectrum synthesis" value="yes"/> <parameter name="residue, modification mass" value="+57.021464@C"/> <parameter name="residue, potential modification mass" value="+15.994915@M"/> <parameter name="residue, potential modification motif" value=""/> <parameter name="scoring, a ions" value="no"/> <parameter name="scoring, algorithm" value="k-score"/> <parameter name="scoring, b ions" value="yes"/> <parameter name="scoring, c ions" value="no"/> <parameter name="scoring, cyclic permutation" value="no"/> <parameter name="scoring, include reverse" value="no"/> <parameter name="scoring, maximum missed cleavage sites" value="2"/> <parameter name="scoring, minimum ion count" value="1"/> <parameter name="scoring, x ions" value="no"/> <parameter name="scoring, y ions" value="yes"/> <parameter name="scoring, z ions" value="no"/> <parameter name="spectrum, dynamic range" value="10000.0"/> <parameter name="spectrum, fragment mass type" value="monoisotopic"/> <parameter name="spectrum, fragment monoisotopic mass error" value="0.5"/> <parameter name="spectrum, fragment monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, maximum parent charge" value="5"/> <parameter name="spectrum, minimum fragment mz" value="125.0"/> <parameter name="spectrum, minimum parent m+h" value="600.0"/> <parameter name="spectrum, minimum peaks" value="10"/> <parameter name="spectrum, parent monoisotopic mass error minus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error plus" value="0.5"/> <parameter name="spectrum, parent monoisotopic mass error units" value="Daltons"/> <parameter name="spectrum, parent monoisotopic mass isotope error" value="yes"/> <parameter name="spectrum, path" value="E:\Taverna\data\Test\Ecoli.mzXML"/> <parameter name="spectrum, sequence batch size" value="1000"/> <parameter name="spectrum, threads" value="4"/> <parameter name="spectrum, total peaks" value="400"/> <parameter name="spectrum, use conditioning" value="no"/> <parameter name="spectrum, use noise suppression" value="yes"/> <!-- Unused input parameters --> <parameter name="protein, use minimal annotations" value="yes"/> <parameter name="refine, modification mass" value=""/> <parameter name="refine, point mutations" value="no"/> <parameter name="refine, potential C-terminus modifications" value=""/> <parameter name="refine, potential N-terminus modifications" value=""/> <parameter name="refine, potential modification mass" value=""/> <parameter name="refine, potential modification motif" value=""/> <parameter name="refine, tic percent" value="10"/> <parameter name="refine, unanticipated cleavage" value="no"/> <parameter name="refine, use potential modifications for full refinement" value="no"/> <parameter name="scoring, pluggable scoring" value="yes"/> <!-- Performance parameters --> <parameter name="list path, sequence source #1" value="E:\Taverna\Tandem_Params\18.E_coli_MG1655.fasta"/> <parameter name="list path, sequence source description #1" value="no description"/> <parameter name="modelling, spectrum noise suppression ratio" value="0.00"/> <parameter name="modelling, total peptides used" value="4807363"/> <parameter name="modelling, total proteins used" value="4416"/> <parameter name="modelling, total spectra used" value="9375"/> <parameter name="process, start time" value="2012:06:11:14:23:31"/> <parameter name="process, version" value="x! tandem CYCLONE TPP (2011.12.01.1 - LabKey, Insilicos, ISB) "/> <parameter name="quality values" value="362 139 97 91 90 62 57 35 20 14 7 5 0 3 0 1 0 0 0 0"/> <parameter name="refining, # input models" value="0"/> <parameter name="refining, # input spectra" value="0"/> <parameter name="refining, # partial cleavage" value="0"/> <parameter name="refining, # point mutations" value="0"/> <parameter name="refining, # potential C-terminii" value="0"/> <parameter name="refining, # potential N-terminii" value="0"/> <parameter name="refining, # unanticipated cleavage" value="0"/> <parameter name="timing, initial modelling total (sec)" value="25.57"/> <parameter name="timing, initial modelling/spectrum (sec)" value="0.0027"/> <parameter name="timing, load sequence models (sec)" value="0.03"/> <parameter name="timing, refinement/spectrum (sec)" value="0.0000"/> </search_summary> <analysis_timestamp analysis="peptideprophet" time="2012-06-11T14:24:59" id="1"/> <analysis_timestamp analysis="database_refresh" time="2012-06-11T14:24:57" id="1"> <database_refresh_timestamp database="e:/Taverna/Tandem_Params/18.E_coli_MG1655.fasta" min_num_enz_term="2"/> </analysis_timestamp> <spectrum_query spectrum="Ecoli.04386.04386.1" start_scan="4386" end_scan="4386" precursor_neutral_mass="657.4974" assumed_charge="1" index="1" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKAVAAK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P39297|BSMA_ECOLI" protein_descr="Lipoprotein BsmA OS=Escherichia coli (strain K12) GN=bsmA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="12" calc_neutral_pep_mass="657.4177" massdiff="0.080" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="111"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7200" all_ntt_prob="(0.0000,0.7257,0.7200)"> <search_score_summary> <parameter name="fval" value="0.3297"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.080"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.271752" all_ntt_prob="(0,0.27742,0.271752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04526.04526.1" start_scan="4526" end_scan="4526" precursor_neutral_mass="743.3758" assumed_charge="1" index="2" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MPAINAK" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0CF60|INSD8_ECOLI" protein_descr="Putative transposase insD for insertion element IS2E OS=Escherichia coli (strain K12) GN=insD8" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="743.3997" massdiff="-0.024" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="140"/> <search_score name="nextscore" value="117"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3947" all_ntt_prob="(0.0000,0.4016,0.3947)"> <search_score_summary> <parameter name="fval" value="0.2182"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.024"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.086447" all_ntt_prob="(0,0.0887484,0.086447)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04527.04527.1" start_scan="4527" end_scan="4527" precursor_neutral_mass="818.3314" assumed_charge="1" index="3" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="154"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6145" all_ntt_prob="(0.0000,0.6213,0.6145)"> <search_score_summary> <parameter name="fval" value="0.0326"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.154541" all_ntt_prob="(0,0.158342,0.154541)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.35"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03536.03536.1" start_scan="3536" end_scan="3536" precursor_neutral_mass="860.6323" assumed_charge="1" index="4" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLRKSSK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P76510|YFDN_ECOLI" protein_descr="Uncharacterized protein yfdN OS=Escherichia coli (strain K12) GN=yfdN" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="860.4537" massdiff="0.179" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]LRKSSK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="164"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="110"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9544" all_ntt_prob="(0.0000,0.9556,0.9544)"> <search_score_summary> <parameter name="fval" value="3.8167"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.752309" all_ntt_prob="(0,0.757476,0.752309)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01504.01504.2" start_scan="1504" end_scan="1504" precursor_neutral_mass="884.0564" assumed_charge="2" index="5" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LPGGVITTK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P17846|CYSI_ECOLI" protein_descr="Sulfite reductase [NADPH] hemoprotein beta-component OS=Escherichia coli (strain K12) GN=cysI" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="16" calc_neutral_pep_mass="884.5327" massdiff="-0.476" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9087" all_ntt_prob="(0.0000,0.0678,0.9087)"> <search_score_summary> <parameter name="fval" value="2.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.476"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.590892" all_ntt_prob="(0,0.0104443,0.590892)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01372.01372.2" start_scan="1372" end_scan="1372" precursor_neutral_mass="897.0230" assumed_charge="2" index="6" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMATFRR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P34209|YDCF_ECOLI" protein_descr="Protein ydcF OS=Escherichia coli (strain K12) GN=ydcF" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="12" calc_neutral_pep_mass="897.4487" massdiff="-0.426" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TM[147]ATFRR"> <mod_aminoacid_mass position="2" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="327"/> <search_score name="nextscore" value="262"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7064" all_ntt_prob="(0.0000,0.0173,0.7064)"> <search_score_summary> <parameter name="fval" value="1.8838"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.426"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340847" all_ntt_prob="(0,0.00376933,0.340847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04257.04257.1" start_scan="4257" end_scan="4257" precursor_neutral_mass="925.8600" assumed_charge="1" index="7" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AKLYYLR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K6|RL19_ECOLI" protein_descr="50S ribosomal protein L19 OS=Escherichia coli (strain K12) GN=rplS" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="925.5387" massdiff="0.321" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="110"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="210"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6059" all_ntt_prob="(0.0000,0.6127,0.6059)"> <search_score_summary> <parameter name="fval" value="0.0112"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.321"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.18241" all_ntt_prob="(0,0.186709,0.18241)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04268.04268.1" start_scan="4268" end_scan="4268" precursor_neutral_mass="939.5173" assumed_charge="1" index="8" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DGEMEESK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P60757|HIS1_ECOLI" protein_descr="ATP phosphoribosyltransferase OS=Escherichia coli (strain K12) GN=hisG" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="939.3487" massdiff="0.169" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="DGEM[147]EESK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="117"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="280"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1673" all_ntt_prob="(0.0000,0.1713,0.1673)"> <search_score_summary> <parameter name="fval" value="-0.4591"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.02833" all_ntt_prob="(0,0.0291235,0.02833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03090.03090.1" start_scan="3090" end_scan="3090" precursor_neutral_mass="948.9861" assumed_charge="1" index="9" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKVLMADLG" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6C5|ARGA_ECOLI" protein_descr="Amino-acid acetyltransferase OS=Escherichia coli (strain K12) GN=argA" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="16" calc_neutral_pep_mass="948.4947" massdiff="0.491" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="SKVLM[147]ADLG"> <mod_aminoacid_mass position="5" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="132"/> <search_score name="nextscore" value="125"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="200"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0781" all_ntt_prob="(0.0000,0.0801,0.0781)"> <search_score_summary> <parameter name="fval" value="-1.5106"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.491"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0121445" all_ntt_prob="(0,0.0124784,0.0121445)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01366.01366.2" start_scan="1366" end_scan="1366" precursor_neutral_mass="955.3606" assumed_charge="2" index="10" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RTPNANQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P08204|ARAB_ECOLI" protein_descr="Ribulokinase OS=Escherichia coli (strain K12) GN=araB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="14" calc_neutral_pep_mass="955.4947" massdiff="-0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="279"/> <search_score name="nextscore" value="219"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4710" all_ntt_prob="(0.0000,0.0065,0.4710)"> <search_score_summary> <parameter name="fval" value="1.2815"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.114423" all_ntt_prob="(0,0.000948535,0.114423)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01228.01228.2" start_scan="1228" end_scan="1228" precursor_neutral_mass="956.3868" assumed_charge="2" index="11" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NITLAALNK" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P37388|XYLG_ECOLI" protein_descr="Xylose import ATP-binding protein XylG OS=Escherichia coli (strain K12) GN=xylG" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="956.5657" massdiff="-0.179" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0869" all_ntt_prob="(0.0000,0.0007,0.0869)"> <search_score_summary> <parameter name="fval" value="0.0491"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.179"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132973" all_ntt_prob="(0,9.91826e-005,0.0132973)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0325"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04273.04273.1" start_scan="4273" end_scan="4273" precursor_neutral_mass="964.7872" assumed_charge="1" index="12" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="0.341" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="174"/> <search_score name="nextscore" value="104"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="86"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9478" all_ntt_prob="(0.0000,0.9492,0.9478)"> <search_score_summary> <parameter name="fval" value="4.1232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.341"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.828229" all_ntt_prob="(0,0.832268,0.828229)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6451"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04547.04547.1" start_scan="4547" end_scan="4547" precursor_neutral_mass="969.9593" assumed_charge="1" index="13" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVIGTGAPK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P05194|AROD_ECOLI" protein_descr="3-dehydroquinate dehydratase OS=Escherichia coli (strain K12) GN=aroD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="969.5497" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="105"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3184" all_ntt_prob="(0.0000,0.3247,0.3184)"> <search_score_summary> <parameter name="fval" value="0.0147"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063486" all_ntt_prob="(0,0.0652248,0.063486)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03119.03119.2" start_scan="3119" end_scan="3119" precursor_neutral_mass="976.2771" assumed_charge="2" index="14" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNAATALTSK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A8G0|UVRC_ECOLI" protein_descr="UvrABC system protein C OS=Escherichia coli (strain K12) GN=uvrC" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="18" calc_neutral_pep_mass="976.5187" massdiff="-0.242" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="241"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.45"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0658" all_ntt_prob="(0.0000,0.0005,0.0658)"> <search_score_summary> <parameter name="fval" value="-0.1070"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.242"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00864209" all_ntt_prob="(0,6.19102e-005,0.00864209)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2262"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03071.03071.2" start_scan="3071" end_scan="3071" precursor_neutral_mass="976.7642" assumed_charge="2" index="15" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHKPASK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P46022|MTGA_ECOLI" protein_descr="Monofunctional biosynthetic peptidoglycan transglycosylase OS=Escherichia coli (strain K12) GN=mtgA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="976.5127" massdiff="0.251" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.65"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3843" all_ntt_prob="(0.0000,0.0045,0.3843)"> <search_score_summary> <parameter name="fval" value="0.3138"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.251"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.063735" all_ntt_prob="(0,0.000492759,0.063735)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4383"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00696.00696.1" start_scan="696" end_scan="696" precursor_neutral_mass="977.9887" assumed_charge="1" index="16" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FDSLAKAGK" peptide_prev_aa="M" peptide_next_aa="Y" protein="sp|P0AAS9|YBDD_ECOLI" protein_descr="Uncharacterized protein ybdD OS=Escherichia coli (strain K12) GN=ybdD" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="16" calc_neutral_pep_mass="977.5177" massdiff="0.471" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="169"/> <search_score name="nextscore" value="140"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8241" all_ntt_prob="(0.0000,0.8282,0.8241)"> <search_score_summary> <parameter name="fval" value="0.7478"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.471"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.40472" all_ntt_prob="(0,0.411616,0.40472)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03186.03186.2" start_scan="3186" end_scan="3186" precursor_neutral_mass="987.7254" assumed_charge="2" index="17" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="234"/> <search_score name="nextscore" value="213"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0501" all_ntt_prob="(0.0000,0.0004,0.0501)"> <search_score_summary> <parameter name="fval" value="-0.9458"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00500083" all_ntt_prob="(0,3.81309e-005,0.00500083)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.7117"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.2" start_scan="3168" end_scan="3168" precursor_neutral_mass="990.2195" assumed_charge="2" index="18" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MYYPFVR" peptide_prev_aa="-" peptide_next_aa="K" protein="sp|P0A7E1|PYRD_ECOLI" protein_descr="Dihydroorotate dehydrogenase OS=Escherichia coli (strain K12) GN=pyrD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="12" calc_neutral_pep_mass="990.4637" massdiff="-0.244" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]YYPFVR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1186" all_ntt_prob="(0.0000,0.0010,0.1186)"> <search_score_summary> <parameter name="fval" value="0.2312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.244"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0191528" all_ntt_prob="(0,0.000145242,0.0191528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04217.04217.1" start_scan="4217" end_scan="4217" precursor_neutral_mass="1003.4238" assumed_charge="1" index="19" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EVVARAIHK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|Q46802|YGEV_ECOLI" protein_descr="Uncharacterized sigma-54-dependent transcriptional regulator ygeV OS=Escherichia coli (strain K12) GN=ygeV" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="16" calc_neutral_pep_mass="1003.5927" massdiff="-0.169" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]VVARAIHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="131"/> <search_score name="nextscore" value="122"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.1158,0.1129)"> <search_score_summary> <parameter name="fval" value="-1.3030"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.169"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.018651,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00934.00934.2" start_scan="934" end_scan="934" precursor_neutral_mass="1033.9524" assumed_charge="2" index="21" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.441" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9924" all_ntt_prob="(0.0000,0.4881,0.9924)"> <search_score_summary> <parameter name="fval" value="3.7267"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.441"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999233" all_ntt_prob="(0,0.904895,0.999233)"> <search_score_summary> <parameter name="nss" value="0.9846"/> <parameter name="nrs" value="0.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03657.03657.1" start_scan="3657" end_scan="3657" precursor_neutral_mass="1038.6413" assumed_charge="1" index="22" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEMTNAQR" peptide_prev_aa="-" peptide_next_aa="L" protein="sp|P0A8W8|YFBU_ECOLI" protein_descr="UPF0304 protein yfbU OS=Escherichia coli (strain K12) GN=yfbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="14" calc_neutral_pep_mass="1037.4267" massdiff="1.215" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]EMTNAQR"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="162"/> <search_score name="nextscore" value="134"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9010" all_ntt_prob="(0.0000,0.9035,0.9010)"> <search_score_summary> <parameter name="fval" value="0.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.215"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.569099" all_ntt_prob="(0,0.576036,0.569099)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01451.01451.2" start_scan="1451" end_scan="1451" precursor_neutral_mass="1055.0710" assumed_charge="2" index="23" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.537" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="243"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8828,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.537"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.995511" all_ntt_prob="(0,0.625748,0.995511)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.477"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01750.01750.2" start_scan="1750" end_scan="1750" precursor_neutral_mass="1082.5411" assumed_charge="2" index="24" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1082.5396" massdiff="0.001" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="397"/> <search_score name="nextscore" value="240"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.019"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7945,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9766"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.001"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999748" all_ntt_prob="(0,0.966866,0.999748)"> <search_score_summary> <parameter name="nss" value="0.8976"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01756.01756.2" start_scan="1756" end_scan="1756" precursor_neutral_mass="1083.3890" assumed_charge="2" index="25" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SDVLFNFNK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="16" calc_neutral_pep_mass="1082.5397" massdiff="0.849" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="420"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8168,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.849"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99982" all_ntt_prob="(0,0.975471,0.99982)"> <search_score_summary> <parameter name="nss" value="0.9464"/> <parameter name="nrs" value="0.4981"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02026.02026.2" start_scan="2026" end_scan="2026" precursor_neutral_mass="1086.5522" assumed_charge="2" index="26" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.944" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="591"/> <search_score name="nextscore" value="501"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6488,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.944"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999609" all_ntt_prob="(0,0.948696,0.999609)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.488"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03035.03035.1" start_scan="3035" end_scan="3035" precursor_neutral_mass="1107.7532" assumed_charge="1" index="28" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EDDVGNIVHK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P76403|YEGQ_ECOLI" protein_descr="Uncharacterized protease yegQ OS=Escherichia coli (strain K12) GN=yegQ" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="1106.5357" massdiff="1.217" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]DDVGNIVHK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="177"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="9.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8890" all_ntt_prob="(0.0000,0.8918,0.8890)"> <search_score_summary> <parameter name="fval" value="0.5788"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.616644" all_ntt_prob="(0,0.623404,0.616644)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3763"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01344.01344.2" start_scan="1344" end_scan="1344" precursor_neutral_mass="1113.2086" assumed_charge="2" index="29" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.601" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="602"/> <search_score name="nextscore" value="404"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9243,0.9994)"> <search_score_summary> <parameter name="fval" value="6.2964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.601"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999976" all_ntt_prob="(0,0.99679,0.999976)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="1.2523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01415.01415.2" start_scan="1415" end_scan="1415" precursor_neutral_mass="1114.5417" assumed_charge="2" index="30" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="-0.093" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="288"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8392" all_ntt_prob="(0.0000,0.0367,0.8392)"> <search_score_summary> <parameter name="fval" value="2.3844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.093"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.795476" all_ntt_prob="(0,0.0276089,0.795476)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.4482"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01636.01636.2" start_scan="1636" end_scan="1636" precursor_neutral_mass="1122.9461" assumed_charge="2" index="31" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATAWEGFTK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1122.5707" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4990" all_ntt_prob="(0.0000,0.0072,0.4990)"> <search_score_summary> <parameter name="fval" value="0.5660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.126285" all_ntt_prob="(0,0.00105132,0.126285)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00454.00454.1" start_scan="454" end_scan="454" precursor_neutral_mass="1127.3489" assumed_charge="1" index="32" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDRKPGLIK" peptide_prev_aa="G" peptide_next_aa="R" protein="sp|P0ABL5|NAPC_ECOLI" protein_descr="Cytochrome c-type protein napC OS=Escherichia coli (strain K12) GN=napC" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="18" calc_neutral_pep_mass="1126.6457" massdiff="0.703" num_tol_term="1" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="206"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9501" all_ntt_prob="(0.0000,0.9501,0.9487)"> <search_score_summary> <parameter name="fval" value="0.3344"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.703"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.734258" all_ntt_prob="(0,0.734258,0.728533)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03275.03275.1" start_scan="3275" end_scan="3275" precursor_neutral_mass="1128.7555" assumed_charge="1" index="33" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVLMVGPPGTGK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0AAI3|FTSH_ECOLI" protein_descr="ATP-dependent zinc metalloprotease FtsH OS=Escherichia coli (strain K12) GN=ftsH" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="22" calc_neutral_pep_mass="1127.6007" massdiff="1.155" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GVLM[147]VGPPGTGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="196"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5700" all_ntt_prob="(0.0000,0.5770,0.5700)"> <search_score_summary> <parameter name="fval" value="-0.5012"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.155"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.161331" all_ntt_prob="(0,0.165241,0.161331)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01660.01660.2" start_scan="1660" end_scan="1660" precursor_neutral_mass="1129.4291" assumed_charge="2" index="34" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQLIDVIAEK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1128.6387" massdiff="0.790" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="400"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.26"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9704" all_ntt_prob="(0.0000,0.1932,0.9704)"> <search_score_summary> <parameter name="fval" value="2.6961"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.790"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.87567" all_ntt_prob="(0,0.0489282,0.87567)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4447"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01295.01295.2" start_scan="1295" end_scan="1295" precursor_neutral_mass="1142.1457" assumed_charge="2" index="35" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVDIVEPTEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1141.6227" massdiff="0.523" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="360"/> <search_score name="nextscore" value="264"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9828" all_ntt_prob="(0.0000,0.2951,0.9828)"> <search_score_summary> <parameter name="fval" value="3.0946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998087" all_ntt_prob="(0,0.792632,0.998087)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="0.4461"/> <parameter name="nse" value="0"/> 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<search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9958" all_ntt_prob="(0.0000,0.6323,0.9958)"> <search_score_summary> <parameter name="fval" value="5.5809"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.277"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999723" all_ntt_prob="(0,0.963186,0.999723)"> <search_score_summary> <parameter name="nss" value="0.9311"/> <parameter name="nrs" value="0.998999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00899.00899.2" start_scan="899" 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value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00920.00920.2" start_scan="920" end_scan="920" precursor_neutral_mass="1239.1063" assumed_charge="2" index="51" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNSSLSEDGQR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1238.5527" massdiff="0.554" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7880,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.554"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999798" all_ntt_prob="(0,0.973586,0.999798)"> <search_score_summary> <parameter name="nss" value="0.9858"/> <parameter name="nrs" value="0.4897"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> 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index="53" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.345" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="204"/> <search_score name="nextscore" value="165"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1113" all_ntt_prob="(0.0000,0.0009,0.1113)"> <search_score_summary> <parameter name="fval" value="-0.5156"/> <parameter 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num_tot_proteins="1" num_matched_ions="24" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="-0.030" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7377,0.9974)"> <search_score_summary> <parameter name="fval" value="6.1782"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.030"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999802" 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value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.33"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7830" all_ntt_prob="(0.0000,0.0257,0.7830)"> <search_score_summary> <parameter name="fval" value="1.2937"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.714"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.343671" all_ntt_prob="(0,0.0038133,0.343671)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.27"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3124" all_ntt_prob="(0.0044,0.0129,0.3124)"> <search_score_summary> <parameter name="fval" value="1.6569"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0618537" all_ntt_prob="(0.000640928,0.00189289,0.0618537)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00780.00780.2" start_scan="780" end_scan="780" precursor_neutral_mass="1267.3857" assumed_charge="2" index="58" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLSGPQAQPAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00350|6PGD_ECOLI" protein_descr="6-phosphogluconate dehydrogenase, decarboxylating OS=Escherichia coli (strain K12) GN=gnd" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1266.6567" massdiff="0.729" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="309"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9823" all_ntt_prob="(0.0000,0.2881,0.9823)"> <search_score_summary> <parameter name="fval" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9143,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1191"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.171"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99999" all_ntt_prob="(0,0.998661,0.99999)"> <search_score_summary> <parameter name="nss" value="0.9736"/> <parameter name="nrs" value="2.4989"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_hit hit_rank="1" peptide="AFNEMQPIVDR" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1318.6337" massdiff="0.588" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9947" all_ntt_prob="(0.0000,0.5762,0.9947)"> <search_score_summary> <parameter name="fval" value="4.0194"/> <parameter name="ntt" value="2"/> <parameter name="nmc" 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all_ntt_prob="(0,0.0414221,0.855197)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4314"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00944.00944.2" start_scan="944" end_scan="944" precursor_neutral_mass="1339.4037" assumed_charge="2" index="74" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.762" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.023"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9915" all_ntt_prob="(0.0000,0.4616,0.9915)"> <search_score_summary> <parameter name="fval" value="3.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.762"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998438" all_ntt_prob="(0,0.824504,0.998438)"> <search_score_summary> <parameter name="nss" value="0.9824"/> <parameter name="nrs" value="-0.2059"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03357.03357.2" start_scan="3357" end_scan="3357" precursor_neutral_mass="1340.5599" assumed_charge="2" index="75" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSFLIEMWTEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P37679|SGBU_ECOLI" protein_descr="Putative L-ribulose-5-phosphate 3-epimerase sgbU OS=Escherichia coli (strain K12) GN=sgbU" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="20" calc_neutral_pep_mass="1339.6487" massdiff="0.911" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0976" all_ntt_prob="(0.0000,0.0008,0.0976)"> <search_score_summary> <parameter name="fval" value="-0.5890"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.911"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0154528" all_ntt_prob="(0,0.000116174,0.0154528)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02081.02081.2" start_scan="2081" end_scan="2081" precursor_neutral_mass="1343.7314" assumed_charge="2" index="76" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.946" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="553"/> <search_score name="nextscore" value="369"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9011,0.9992)"> <search_score_summary> <parameter name="fval" value="5.9212"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.946"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999977" all_ntt_prob="(0,0.996924,0.999977)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01591.01591.2" start_scan="1591" end_scan="1591" precursor_neutral_mass="1365.8132" assumed_charge="2" index="77" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAMIGDPTGALTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1364.6757" massdiff="1.137" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="195"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7373,0.9974)"> <search_score_summary> <parameter name="fval" value="5.7006"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.137"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999685" all_ntt_prob="(0,0.9587,0.999685)"> <search_score_summary> <parameter name="nss" value="0.9229"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02009.02009.2" start_scan="2009" end_scan="2009" precursor_neutral_mass="1376.5206" assumed_charge="2" index="78" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="-0.122" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="269"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5005" all_ntt_prob="(0.0000,0.0073,0.5005)"> <search_score_summary> <parameter name="fval" value="1.3511"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.122"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.185086" all_ntt_prob="(0,0.00166408,0.185086)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4974"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02004.02004.2" start_scan="2004" end_scan="2004" precursor_neutral_mass="1377.0438" assumed_charge="2" index="79" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SMQDPIADMLTR" peptide_prev_aa="M" peptide_next_aa="L" protein="sp|P0A7W7|RS8_ECOLI" protein_descr="30S ribosomal protein S8 OS=Escherichia coli (strain K12) GN=rpsH" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1376.6427" massdiff="0.401" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="198"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9974" all_ntt_prob="(0.0000,0.7347,0.9974)"> <search_score_summary> <parameter name="fval" value="4.6527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.401"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999026" all_ntt_prob="(0,0.881038,0.999026)"> <search_score_summary> <parameter name="nss" value="0.7614"/> <parameter name="nrs" value="0.0005"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01644.01644.2" start_scan="1644" end_scan="1644" precursor_neutral_mass="1377.7169" assumed_charge="2" index="80" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAQSVVDYLISK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1377.7617" massdiff="-0.045" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5818" all_ntt_prob="(0.0000,0.0101,0.5818)"> <search_score_summary> <parameter name="fval" value="1.5469"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.045"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.172834" all_ntt_prob="(0,0.00153007,0.172834)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0444"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01034.01034.2" start_scan="1034" end_scan="1034" precursor_neutral_mass="1402.9990" assumed_charge="2" index="81" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QEAAPAAAPAPAAGVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1401.7257" massdiff="1.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]EAAPAAAPAPAAGVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9927" all_ntt_prob="(0.0000,0.4990,0.9927)"> <search_score_summary> <parameter name="fval" value="4.6247"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999585" all_ntt_prob="(0,0.946306,0.999585)"> <search_score_summary> <parameter name="nss" value="0.783"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.6873"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04655.04655.2" start_scan="4655" end_scan="4655" precursor_neutral_mass="1404.4752" assumed_charge="2" index="82" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ADLASMEQISLVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q2EES3|YOEF_ECOLI" protein_descr="Putative uncharacterized protein yoeF OS=Escherichia coli (strain K12) GN=yoeF" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="24" calc_neutral_pep_mass="1403.7327" massdiff="0.742" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="216"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0542" all_ntt_prob="(0.0000,0.0004,0.0542)"> <search_score_summary> <parameter name="fval" value="-0.9048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.742"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00824752" all_ntt_prob="(0,5.80669e-005,0.00824752)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01225.01225.2" start_scan="1225" end_scan="1225" precursor_neutral_mass="1405.6791" assumed_charge="2" index="83" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MQVSVETTQGLGR" peptide_prev_aa="-" peptide_next_aa="R" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1404.7027" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="205"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9766" all_ntt_prob="(0.0000,0.2337,0.9766)"> <search_score_summary> <parameter name="fval" value="2.8660"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.904434" all_ntt_prob="(0,0.064683,0.904434)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4978"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01105.01105.2" start_scan="1105" end_scan="1105" precursor_neutral_mass="1408.9231" assumed_charge="2" index="84" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGSDAYNQGLSER" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1408.6587" massdiff="0.264" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2686" all_ntt_prob="(0.0000,0.0027,0.2686)"> <search_score_summary> <parameter name="fval" value="0.0342"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.264"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.340963" all_ntt_prob="(0,0.00379954,0.340963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2.1271"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01357.01357.2" start_scan="1357" end_scan="1357" precursor_neutral_mass="1413.9465" assumed_charge="2" index="87" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LSGSVTVGETPVIR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1413.7827" massdiff="0.164" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="154"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8659" all_ntt_prob="(0.0000,0.0451,0.8659)"> <search_score_summary> <parameter name="fval" value="1.6416"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.164"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.570663" all_ntt_prob="(0,0.00962853,0.570663)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4016"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01645.01645.2" start_scan="1645" end_scan="1645" precursor_neutral_mass="1414.8838" assumed_charge="2" index="88" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GGVIPGEYIPAVDK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1413.7507" massdiff="1.133" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="224"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2257" all_ntt_prob="(0.0000,0.0021,0.2257)"> <search_score_summary> <parameter name="fval" value="0.4379"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.133"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.105917" all_ntt_prob="(0,0.000854528,0.105917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.9987"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01788.01788.2" start_scan="1788" end_scan="1788" precursor_neutral_mass="1429.4936" assumed_charge="2" index="89" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DIADAVTAAGVEVAK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="0.748" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8827,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6929"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.748"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999953" all_ntt_prob="(0,0.993807,0.999953)"> <search_score_summary> <parameter name="nss" value="0.9826"/> <parameter name="nrs" value="1.1371"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01700.01700.2" start_scan="1700" end_scan="1700" precursor_neutral_mass="1430.5692" assumed_charge="2" index="90" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITLNMGVGEAIADK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P62399|RL5_ECOLI" protein_descr="50S ribosomal protein L5 OS=Escherichia coli (strain K12) GN=rplE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1430.7437" massdiff="-0.175" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="275"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.14"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7759" all_ntt_prob="(0.0000,0.0247,0.7759)"> <search_score_summary> <parameter name="fval" value="2.1152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.175"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.334416" all_ntt_prob="(0,0.00366172,0.334416)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02471.02471.2" start_scan="2471" end_scan="2471" precursor_neutral_mass="1430.8720" assumed_charge="2" index="91" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALDAIIASVTESLK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0ACF4|DBHB_ECOLI" protein_descr="DNA-binding protein HU-beta OS=Escherichia coli (strain K12) GN=hupB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1429.8027" massdiff="1.069" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="428"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7719,0.9978)"> <search_score_summary> <parameter name="fval" value="5.9239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.069"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999633" all_ntt_prob="(0,0.953144,0.999633)"> <search_score_summary> <parameter name="nss" value="0.9635"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00768.00768.3" start_scan="768" end_scan="768" precursor_neutral_mass="1434.8035" assumed_charge="3" index="92" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="1.120" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="295"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7946" all_ntt_prob="(0.0361,0.1002,0.7946)"> <search_score_summary> <parameter name="fval" value="5.0918"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.120"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.413436" all_ntt_prob="(0.00677747,0.0198858,0.413436)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01633.01633.2" start_scan="1633" end_scan="1633" precursor_neutral_mass="1447.4396" assumed_charge="2" index="93" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LATLPTYEEAIAR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1446.7717" massdiff="0.668" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="424"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7322,0.9973)"> <search_score_summary> <parameter name="fval" value="4.6406"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.668"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.979086,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9752"/> <parameter name="nrs" value="0.9858"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01669.01669.2" start_scan="1669" end_scan="1669" precursor_neutral_mass="1449.1801" assumed_charge="2" index="94" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EFDAVVIGAGGAGMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AC41|DHSA_ECOLI" protein_descr="Succinate dehydrogenase flavoprotein subunit OS=Escherichia coli (strain K12) GN=sdhA" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1448.7077" massdiff="0.472" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3219" all_ntt_prob="(0.0000,0.0035,0.3219)"> <search_score_summary> <parameter name="fval" value="0.1687"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.472"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0644488" all_ntt_prob="(0,0.000509436,0.0644488)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02484.02484.2" start_scan="2484" end_scan="2484" precursor_neutral_mass="1453.0750" assumed_charge="2" index="95" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KDDTIPAIISHDE" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P0AE18|AMPM_ECOLI" protein_descr="Methionine aminopeptidase OS=Escherichia coli (strain K12) GN=map" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1452.7097" massdiff="0.365" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="209"/> <search_score name="nextscore" value="160"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2839" all_ntt_prob="(0.0000,0.0029,0.2839)"> <search_score_summary> <parameter name="fval" value="0.0741"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.365"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0544024" all_ntt_prob="(0,0.000421887,0.0544024)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01880.01880.2" start_scan="1880" end_scan="1880" precursor_neutral_mass="1468.2329" assumed_charge="2" index="97" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.541" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="480"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.7e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9697,0.9998)"> <search_score_summary> <parameter name="fval" value="7.9531"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.541"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999994" all_ntt_prob="(0,0.999119,0.999994)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.4965"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01901.01901.2" start_scan="1901" end_scan="1901" precursor_neutral_mass="1468.7785" assumed_charge="2" index="98" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="1.087" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="378"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7849,0.9980)"> <search_score_summary> <parameter name="fval" value="6.0173"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.087"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999931" all_ntt_prob="(0,0.990691,0.999931)"> <search_score_summary> <parameter name="nss" value="0.9246"/> <parameter name="nrs" value="1.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00796.00796.3" start_scan="796" end_scan="796" precursor_neutral_mass="1480.6526" assumed_charge="3" index="100" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EGEATLAPSLDLVGK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="56" calc_neutral_pep_mass="1480.7777" massdiff="-0.125" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]GEATLAPSLDLVGK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="330"/> <search_score name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1205" all_ntt_prob="(0.0013,0.0039,0.1205)"> <search_score_summary> <parameter name="fval" value="0.8839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.125"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0194949" all_ntt_prob="(0.000188863,0.000567852,0.0194949)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03432.03432.2" start_scan="3432" end_scan="3432" precursor_neutral_mass="1483.8469" assumed_charge="2" index="101" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDDFGMGYAGLR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P37649|YHJK_ECOLI" protein_descr="Protein YhjK OS=Escherichia coli (strain K12) GN=yhjK" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="26" calc_neutral_pep_mass="1483.7127" massdiff="0.134" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="211"/> <search_score name="nextscore" value="157"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4025" all_ntt_prob="(0.0000,0.0049,0.4025)"> <search_score_summary> <parameter name="fval" value="0.3546"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.134"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0890516" all_ntt_prob="(0,0.000714067,0.0890516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03168.03168.3" start_scan="3168" end_scan="3168" precursor_neutral_mass="1485.3293" assumed_charge="3" index="102" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YAWVREYTKNR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P52125|YFJJ_ECOLI" protein_descr="Uncharacterized protein yfjJ OS=Escherichia coli (strain K12) GN=yfjJ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="40" calc_neutral_pep_mass="1484.7527" massdiff="0.577" num_tol_term="2" num_missed_cleavages="2" is_rejected="0"> <search_score name="hyperscore" value="485"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7850" all_ntt_prob="(0.0342,0.0951,0.7850)"> <search_score_summary> <parameter name="fval" value="5.0294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.577"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.34634" all_ntt_prob="(0.00511249,0.015022,0.34634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01848.01848.2" start_scan="1848" end_scan="1848" precursor_neutral_mass="1495.3904" assumed_charge="2" index="103" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="0.619" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="250"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8628,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4886"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.619"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99988" all_ntt_prob="(0,0.984361,0.99988)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.4877"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03726.03726.2" start_scan="3726" end_scan="3726" precursor_neutral_mass="1512.0675" assumed_charge="2" index="104" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITGLSASATSQHLAR" peptide_prev_aa="R" peptide_next_aa="M" protein="sp|P77295|YGAV_ECOLI" protein_descr="Probable HTH-type transcriptional regulator ygaV OS=Escherichia coli (strain K12) GN=ygaV" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="28" calc_neutral_pep_mass="1511.8057" massdiff="0.262" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="208"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0515" all_ntt_prob="(0.0000,0.0004,0.0515)"> <search_score_summary> <parameter name="fval" value="-0.9312"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.262"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00781774" all_ntt_prob="(0,5.80669e-005,0.00781774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01459.01459.2" start_scan="1459" end_scan="1459" precursor_neutral_mass="1514.9758" assumed_charge="2" index="105" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLEAQLAEAQTR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P09372|GRPE_ECOLI" protein_descr="Protein grpE OS=Escherichia coli (strain K12) GN=grpE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1512.7897" massdiff="2.186" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0059"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9349" all_ntt_prob="(0.0000,0.0950,0.9349)"> <search_score_summary> <parameter name="fval" value="4.5983"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.186"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.675749" all_ntt_prob="(0,0.0150048,0.675749)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02226.02226.2" start_scan="2226" end_scan="2226" precursor_neutral_mass="1556.7340" assumed_charge="2" index="107" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTDAAQQVVAAVEGK" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1555.8207" massdiff="0.913" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9361,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5504"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.913"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993292,0.999951)"> <search_score_summary> <parameter name="nss" value="0.989"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01968.01968.2" start_scan="1968" end_scan="1968" precursor_neutral_mass="1562.8626" assumed_charge="2" index="108" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQLVGDDLFVTNTK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="26" calc_neutral_pep_mass="1561.8347" massdiff="1.028" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="220"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8052" all_ntt_prob="(0.0000,0.0293,0.8052)"> <search_score_summary> <parameter name="fval" value="1.9817"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.028"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.767435" all_ntt_prob="(0,0.0235302,0.767435)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.5"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02059.02059.2" start_scan="2059" end_scan="2059" precursor_neutral_mass="1582.8662" assumed_charge="2" index="113" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NVALEEQAVEAVLAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A850|TIG_ECOLI" protein_descr="Trigger factor OS=Escherichia coli (strain K12) GN=tig" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="28" calc_neutral_pep_mass="1582.8566" massdiff="0.010" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="150"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.4e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8934,0.9991)"> <search_score_summary> <parameter name="fval" value="5.8196"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.010"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9999" all_ntt_prob="(0,0.986928,0.9999)"> <search_score_summary> <parameter name="nss" value="0.9491"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01940.01940.2" start_scan="1940" end_scan="1940" precursor_neutral_mass="1583.6924" assumed_charge="2" index="115" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLAQGTDVSFGSFGLK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ADY7|RL16_ECOLI" protein_descr="50S ribosomal protein L16 OS=Escherichia coli (strain K12) GN=rplP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1582.7987" massdiff="0.894" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9500" all_ntt_prob="(0.0000,0.1220,0.9500)"> <search_score_summary> <parameter name="fval" value="2.3270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.894"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.885516" all_ntt_prob="(0,0.0535384,0.885516)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.999998"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03659.03659.3" start_scan="3659" end_scan="3659" precursor_neutral_mass="1590.6650" assumed_charge="3" index="116" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NPDAQQAIFQEMAK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P43329|HRPA_ECOLI" protein_descr="ATP-dependent RNA helicase hrpA OS=Escherichia coli (strain K12) GN=hrpA" num_tot_proteins="1" num_matched_ions="11" tot_num_ions="52" calc_neutral_pep_mass="1589.7507" massdiff="0.914" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="437"/> <search_score name="nextscore" value="394"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3307" all_ntt_prob="(0.0048,0.0140,0.3307)"> <search_score_summary> <parameter name="fval" value="0.9934"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.914"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0669051" all_ntt_prob="(0.000699434,0.00205626,0.0669051)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02309.02309.2" start_scan="2309" end_scan="2309" precursor_neutral_mass="1598.2781" assumed_charge="2" index="117" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IATDPFVGNLTFFR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1596.8297" massdiff="1.448" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="476"/> <search_score name="nextscore" value="267"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.039"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8239,0.9984)"> <search_score_summary> <parameter name="fval" value="6.3422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.448"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999836" all_ntt_prob="(0,0.978564,0.999836)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.497"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00784.00784.3" start_scan="784" end_scan="784" precursor_neutral_mass="1601.2434" assumed_charge="3" index="119" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GVHEGHVAAEVIAGKK" peptide_prev_aa="K" peptide_next_aa="H" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="60" calc_neutral_pep_mass="1600.8687" massdiff="0.375" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="393"/> <search_score name="nextscore" value="275"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9158" all_ntt_prob="(0.0954,0.2386,0.9158)"> <search_score_summary> <parameter name="fval" value="4.1164"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.375"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.910932" all_ntt_prob="(0.0902203,0.227602,0.910932)"> <search_score_summary> <parameter name="nss" value="0.5561"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02443.02443.2" start_scan="2443" end_scan="2443" precursor_neutral_mass="1603.3818" assumed_charge="2" index="120" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GISLLDAFGAANDVLK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A9A6|FTSZ_ECOLI" protein_descr="Cell division protein ftsZ OS=Escherichia coli (strain K12) GN=ftsZ" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="30" calc_neutral_pep_mass="1602.8617" massdiff="0.520" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="354"/> <search_score name="nextscore" value="216"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.002"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.6662,0.9964)"> <search_score_summary> <parameter name="fval" value="4.3524"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.520"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.975708" all_ntt_prob="(0,0.224582,0.975708)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01046.01046.2" start_scan="1046" end_scan="1046" precursor_neutral_mass="1633.9151" assumed_charge="2" index="122" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESAPAAAAPAAQPALAAR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="34" calc_neutral_pep_mass="1632.8587" massdiff="1.056" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="421"/> <search_score name="nextscore" value="258"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" 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massdiff="1.193" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="392"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9875" all_ntt_prob="(0.0000,0.3663,0.9875)"> <search_score_summary> <parameter name="fval" value="4.1364"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.193"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997911" all_ntt_prob="(0,0.777524,0.997911)"> <search_score_summary> <parameter name="nss" 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peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="0.268" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="376"/> <search_score name="nextscore" value="203"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9988" all_ntt_prob="(0.0000,0.8545,0.9988)"> <search_score_summary> <parameter name="fval" value="5.4132"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter 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value="0"/> <parameter name="massd" value="-0.490"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.449317" all_ntt_prob="(0,0.00593247,0.449317)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03558.03558.2" start_scan="3558" end_scan="3558" precursor_neutral_mass="1740.7058" assumed_charge="2" index="147" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDNGLAHIGVVSDGFAR" peptide_prev_aa="R" peptide_next_aa="D" protein="sp|P32668|YIJF_ECOLI" protein_descr="Uncharacterized protein yijF OS=Escherichia coli (strain K12) GN=yijF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1739.8957" massdiff="0.810" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="231"/> <search_score name="nextscore" value="207"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.91"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0596" all_ntt_prob="(0.0000,0.0005,0.0596)"> <search_score_summary> <parameter name="fval" value="-0.8551"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.810"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00911334" all_ntt_prob="(0,7.25898e-005,0.00911334)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02122.02122.3" start_scan="2122" end_scan="2122" precursor_neutral_mass="1742.2523" assumed_charge="3" index="148" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AWNMLVALQAGNIVAR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P39874|YBEM_ECOLI" protein_descr="Putative UPF0012 hydrolase ybeM OS=Escherichia coli (strain K12) GN=ybeM" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="60" calc_neutral_pep_mass="1741.9297" massdiff="0.323" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AWNM[147]LVALQAGNIVAR"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="343"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.81"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1715" all_ntt_prob="(0.0020,0.0059,0.1715)"> <search_score_summary> <parameter name="fval" value="1.1437"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.323"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0291634" all_ntt_prob="(0.000290732,0.000860534,0.0291634)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.3" start_scan="1492" end_scan="1492" precursor_neutral_mass="1756.7190" assumed_charge="3" index="150" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAINAPMQGTAADIIKR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P00582|DPO1_ECOLI" protein_descr="DNA polymerase I OS=Escherichia coli (strain K12) GN=polA" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="64" calc_neutral_pep_mass="1755.9297" massdiff="0.789" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAINAPM[147]QGTAADIIKR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="349"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0538" all_ntt_prob="(0.0006,0.0016,0.0538)"> <search_score_summary> <parameter name="fval" value="-0.3002"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.789"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00818372" all_ntt_prob="(8.71152e-005,0.000232506,0.00818372)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03779.03779.3" start_scan="3779" end_scan="3779" precursor_neutral_mass="1762.1819" assumed_charge="3" index="151" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGDAAEHAEFHMK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|Q9S4W2|YUBM_ECOLI" protein_descr="Uncharacterized protein yubM OS=Escherichia coli (strain K12) GN=yubM" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="56" calc_neutral_pep_mass="1760.7977" massdiff="1.384" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="M[147]KKGDAAEHAEFHM[147]K"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="233"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="130"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5500" all_ntt_prob="(0.0117,0.0340,0.5500)"> <search_score_summary> <parameter name="fval" value="3.9581"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.384"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.150646" all_ntt_prob="(0.00171503,0.0050817,0.150646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01790.01790.2" start_scan="1790" end_scan="1790" precursor_neutral_mass="1763.0371" assumed_charge="2" index="152" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TQVVVLGAGPAGYSAAFR" peptide_prev_aa="K" peptide_next_aa="C" protein="sp|P0A9P0|DLDH_ECOLI" protein_descr="Dihydrolipoyl dehydrogenase OS=Escherichia coli (strain K12) GN=lpdA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="34" calc_neutral_pep_mass="1762.9367" massdiff="0.100" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="287"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.032"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9801" all_ntt_prob="(0.0000,0.2648,0.9801)"> <search_score_summary> <parameter name="fval" value="2.9854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.100"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996776" all_ntt_prob="(0,0.69333,0.996776)"> <search_score_summary> <parameter name="nss" value="0.9787"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01010.01010.2" start_scan="1010" end_scan="1010" precursor_neutral_mass="1779.8884" assumed_charge="2" index="153" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GMGESNPVTGNTCDNVK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="32" calc_neutral_pep_mass="1778.7567" massdiff="1.132" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="GMGESNPVTGNTCDNVK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="350"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9930" all_ntt_prob="(0.0000,0.5073,0.9930)"> <search_score_summary> <parameter name="fval" value="4.6560"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.132"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998863" all_ntt_prob="(0,0.864382,0.998863)"> <search_score_summary> <parameter name="nss" value="0.9737"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01380.01380.3" start_scan="1380" end_scan="1380" precursor_neutral_mass="1862.2029" assumed_charge="3" index="157" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLAEGQRVEFEITNGAK" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1861.9537" massdiff="0.249" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.075"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0636" all_ntt_prob="(0.0007,0.0020,0.0636)"> <search_score_summary> <parameter name="fval" value="2.5131"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.249"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00976014" all_ntt_prob="(0.000101643,0.000290732,0.00976014)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03075.03075.2" start_scan="3075" end_scan="3075" precursor_neutral_mass="1908.1413" assumed_charge="2" index="158" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VFMQPASEGTGIIAGGAMR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="36" calc_neutral_pep_mass="1907.9237" massdiff="0.218" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VFMQPASEGTGIIAGGAM[147]R"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="222"/> <search_score name="nextscore" value="178"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.7"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2472" all_ntt_prob="(0.0000,0.0024,0.2472)"> <search_score_summary> <parameter name="fval" value="-0.0241"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.218"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0454853" all_ntt_prob="(0,0.000348998,0.0454853)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01830.01830.3" start_scan="1830" end_scan="1830" precursor_neutral_mass="2048.4792" assumed_charge="3" index="163" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RAEAAPAATGGGIPGMLPWPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P06959|ODP2_ECOLI" protein_descr="Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex OS=Escherichia coli (strain K12) GN=aceF" num_tot_proteins="1" num_matched_ions="39" tot_num_ions="80" calc_neutral_pep_mass="2047.0677" massdiff="1.411" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="323"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3175" all_ntt_prob="(0.0045,0.0132,0.3175)"> <search_score_summary> <parameter name="fval" value="0.9556"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.411"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.113917" all_ntt_prob="(0.00124768,0.00368311,0.113917)"> <search_score_summary> <parameter name="nss" value="0.2775"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04689.04689.3" start_scan="4689" end_scan="4689" precursor_neutral_mass="2065.8182" assumed_charge="3" index="164" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HHAVILVSPAVVQGAPDISR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P18006|TRBI_ECOLI" protein_descr="Protein trbI OS=Escherichia coli (strain K12) GN=trbI" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="76" calc_neutral_pep_mass="2065.1437" massdiff="0.674" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="340"/> <search_score name="nextscore" value="284"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3129" all_ntt_prob="(0.0044,0.0129,0.3129)"> <search_score_summary> <parameter name="fval" value="0.9423"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.674"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0619889" all_ntt_prob="(0.000640928,0.00189289,0.0619889)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.3" start_scan="1350" end_scan="1350" precursor_neutral_mass="2122.3963" assumed_charge="3" index="167" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GEILGGMAAVEQPEKPAAQPK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V3|RS3_ECOLI" protein_descr="30S ribosomal protein S3 OS=Escherichia coli (strain K12) GN=rpsC" num_tot_proteins="1" num_matched_ions="41" tot_num_ions="80" calc_neutral_pep_mass="2120.0937" massdiff="2.303" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2691" all_ntt_prob="(0.0036,0.0105,0.2691)"> <search_score_summary> <parameter name="fval" value="0.9943"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.303"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0507847" all_ntt_prob="(0.000524751,0.00153963,0.0507847)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0018"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01938.01938.3" start_scan="1938" end_scan="1938" precursor_neutral_mass="2194.0997" assumed_charge="3" index="170" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNEIETYMDGVHLICTTAK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="31" tot_num_ions="72" calc_neutral_pep_mass="2193.0447" massdiff="1.055" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNEIETYMDGVHLICTTAK"> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="331"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.15"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7954" all_ntt_prob="(0.0363,0.1007,0.7954)"> <search_score_summary> <parameter name="fval" value="2.3813"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.055"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.429856" all_ntt_prob="(0.00725206,0.0212546,0.429856)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.3397"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03403.03403.3" start_scan="3403" end_scan="3403" precursor_neutral_mass="2507.2025" assumed_charge="3" index="184" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HFMNASGGGVTASGGEAILQAEFVR" peptide_prev_aa="R" peptide_next_aa="D" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244553" all_ntt_prob="(0.000247059,0.000714067,0.0244553)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02288.02288.3" start_scan="2288" end_scan="2288" precursor_neutral_mass="2541.6469" assumed_charge="3" index="186" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIAYDTLVMALGSTSNDFNTPGVK" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P00393|DHNA_ECOLI" protein_descr="NADH dehydrogenase OS=Escherichia coli (strain K12) GN=ndh" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="92" calc_neutral_pep_mass="2541.2787" massdiff="0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="0.4528"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.368"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00972769" all_ntt_prob="(0.000101643,0.000276172,0.00972769)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03662.03662.3" start_scan="3662" end_scan="3662" precursor_neutral_mass="2598.2206" assumed_charge="3" index="188" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EATALGCAIAAGVGAGIFSSMAETGER" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P77432|LSRK_ECOLI" protein_descr="Autoinducer 2 kinase lsrK OS=Escherichia coli (strain K12) GN=lsrK" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="104" calc_neutral_pep_mass="2596.2257" massdiff="1.995" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="EATALGCAIAAGVGAGIFSSMAETGER"> <mod_aminoacid_mass position="7" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="313"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0509" all_ntt_prob="(0.0005,0.0015,0.0509)"> <search_score_summary> <parameter name="fval" value="-0.1632"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.995"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00772252" all_ntt_prob="(7.25898e-005,0.000217956,0.00772252)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04010.04010.3" start_scan="4010" end_scan="4010" precursor_neutral_mass="2642.1807" assumed_charge="3" index="189" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VLLLDVVIGFGATADPAASLVSAWQK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|Q47208|FDRA_ECOLI" protein_descr="Protein fdrA OS=Escherichia coli (strain K12) GN=fdrA" num_tot_proteins="1" num_matched_ions="38" tot_num_ions="100" calc_neutral_pep_mass="2640.4527" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="403"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4146" all_ntt_prob="(0.0068,0.0200,0.4146)"> <search_score_summary> <parameter name="fval" value="1.4134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.728"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0931985" all_ntt_prob="(0.000992569,0.00295284,0.0931985)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.3" start_scan="1178" end_scan="1178" precursor_neutral_mass="2705.8090" assumed_charge="3" index="190" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TNYDHPSAMDHSLLLEHLQALKR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A8F4|URK_ECOLI" protein_descr="Uridine kinase OS=Escherichia coli (strain K12) GN=udk" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="88" calc_neutral_pep_mass="2704.3387" massdiff="1.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TNYDHPSAM[147]DHSLLLEHLQALKR"> <mod_aminoacid_mass position="9" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="321"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.61"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2102" all_ntt_prob="(0.0026,0.0076,0.2102)"> <search_score_summary> <parameter name="fval" value="0.6110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0371859" all_ntt_prob="(0.000378146,0.00111011,0.0371859)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04604.04604.3" start_scan="4604" end_scan="4604" precursor_neutral_mass="2734.0753" assumed_charge="3" index="191" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CGINLIDTAPGYNFGNSEVIVGQALK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P77256|YDJG_ECOLI" protein_descr="Uncharacterized oxidoreductase ydjG OS=Escherichia coli (strain K12) GN=ydjG" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="100" calc_neutral_pep_mass="2732.3477" massdiff="1.728" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]GINLIDTAPGYNFGNSEVIVGQALK"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="377"/> <search_score name="nextscore" value="334"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result 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peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P37306|ARCC_ECOLI" protein_descr="Carbamate kinase OS=Escherichia coli (strain K12) GN=arcC" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="112" calc_neutral_pep_mass="2957.4337" massdiff="1.707" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="435"/> <search_score name="nextscore" value="358"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1149" all_ntt_prob="(0.0013,0.0037,0.1149)"> <search_score_summary> <parameter name="fval" value="2.3928"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.707"/> 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<analysis_result analysis="interprophet"> <interprophet_result probability="0.0108705" all_ntt_prob="(0.000101643,0.00031986,0.0108705)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04052.04052.3" start_scan="4052" end_scan="4052" precursor_neutral_mass="2644.7600" assumed_charge="3" index="194" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSQSKAIQLATHTDYSHTGMLVIR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P32167|YIIX_ECOLI" protein_descr="Uncharacterized protein yiiX OS=Escherichia coli (strain K12) GN=yiiX" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="92" calc_neutral_pep_mass="2643.3437" massdiff="1.416" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="423"/> <search_score name="nextscore" value="355"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.55"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0865" all_ntt_prob="(0.0009,0.0027,0.0865)"> <search_score_summary> <parameter name="fval" value="1.9593"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.416"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.013555" all_ntt_prob="(0.000130706,0.000392724,0.013555)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04017.04017.3" start_scan="4017" end_scan="4017" precursor_neutral_mass="2644.3289" assumed_charge="3" index="195" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAGHPEIGLLFFILPGAVASFFSQR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P64439|YBJM_ECOLI" protein_descr="Inner membrane protein ybjM OS=Escherichia coli (strain K12) GN=ybjM" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="96" calc_neutral_pep_mass="2644.4167" massdiff="-0.088" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="387"/> <search_score name="nextscore" value="349"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0569" all_ntt_prob="(0.0006,0.0017,0.0569)"> <search_score_summary> <parameter name="fval" value="0.3842"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.088"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00867938" all_ntt_prob="(8.71152e-005,0.000247059,0.00867938)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02449.02449.3" start_scan="2449" end_scan="2449" precursor_neutral_mass="2639.3607" assumed_charge="3" index="196" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SFGDIPLVHGMPFISGIGIEALQNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="47" tot_num_ions="96" calc_neutral_pep_mass="2639.3777" massdiff="-0.017" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="279"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00048"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9910" all_ntt_prob="(0.5172,0.7609,0.9910)"> <search_score_summary> <parameter name="fval" value="6.8270"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.017"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.941104" all_ntt_prob="(0.134542,0.315919,0.941104)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04046.04046.3" start_scan="4046" end_scan="4046" precursor_neutral_mass="2485.5033" assumed_charge="3" index="197" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RWITLAIISFSGGVSFDLAYLR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P77031|YQCE_ECOLI" protein_descr="Inner membrane protein yqcE OS=Escherichia coli (strain K12) GN=yqcE" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2484.3527" massdiff="1.151" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.43"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1073" all_ntt_prob="(0.0012,0.0034,0.1073)"> <search_score_summary> <parameter name="fval" value="0.1355"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.151"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0171437" all_ntt_prob="(0.00017432,0.000494838,0.0171437)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03853.03853.2" start_scan="3853" end_scan="3853" precursor_neutral_mass="2350.4208" assumed_charge="2" index="200" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TPLIISGPAEDSSEMYKRVNK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P10408|SECA_ECOLI" protein_descr="Protein translocase subunit secA OS=Escherichia coli (strain K12) GN=secA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="40" calc_neutral_pep_mass="2350.1837" massdiff="0.237" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="TPLIISGPAEDSSEM[147]YKRVNK"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="294"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0946" all_ntt_prob="(0.0000,0.0008,0.0946)"> <search_score_summary> <parameter name="fval" value="1.7523"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.237"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.014936" all_ntt_prob="(0,0.000116174,0.014936)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04343.04343.3" start_scan="4343" end_scan="4343" precursor_neutral_mass="2236.5128" assumed_charge="3" index="203" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CLESGMDSCLSKPVTLDVIK" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P14376|RCSC_ECOLI" protein_descr="Sensor kinase protein RcsC OS=Escherichia coli (strain K12) GN=rcsC" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="76" calc_neutral_pep_mass="2234.0637" massdiff="2.449" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="C[143]LESGMDSCLSKPVTLDVIK"> <mod_aminoacid_mass position="1" mass="143.0041"/> <mod_aminoacid_mass position="9" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="333"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2252" all_ntt_prob="(0.0028,0.0083,0.2252)"> <search_score_summary> <parameter name="fval" value="0.8470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.449"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0404722" all_ntt_prob="(0.000407304,0.00121308,0.0404722)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02881.02881.3" start_scan="2881" end_scan="2881" precursor_neutral_mass="2209.4423" assumed_charge="3" index="205" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLAGCIALAFSNMALAEDIK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AD96|LIVJ_ECOLI" protein_descr="Leu\Ile\Val-binding protein OS=Escherichia coli (strain K12) GN=livJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="80" calc_neutral_pep_mass="2207.1327" massdiff="2.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ALLAGCIALAFSNM[147]ALAEDIK"> <mod_aminoacid_mass position="6" mass="160.0306"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2843" all_ntt_prob="(0.0038,0.0113,0.2843)"> <search_score_summary> <parameter name="fval" value="1.0422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0545037" all_ntt_prob="(0.000553244,0.00165582,0.0545037)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02615.02615.3" start_scan="2615" end_scan="2615" precursor_neutral_mass="2186.5012" assumed_charge="3" index="206" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QGISLSGGDPLHPQNVPDILK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A9N8|NRDG_ECOLI" protein_descr="Anaerobic ribonucleoside-triphosphate reductase-activating protein OS=Escherichia coli (strain K12) GN=nrdG" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="80" calc_neutral_pep_mass="2184.1537" massdiff="2.347" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="338"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1338" all_ntt_prob="(0.0015,0.0044,0.1338)"> <search_score_summary> <parameter name="fval" value="0.4608"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.347"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0242673" all_ntt_prob="(0.00024182,0.00071107,0.0242673)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1304"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.3" start_scan="776" end_scan="776" precursor_neutral_mass="2150.3681" assumed_charge="3" index="207" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIYEHGVPQAPLAVTGETEK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AES6|GYRB_ECOLI" protein_descr="DNA gyrase subunit B OS=Escherichia coli (strain K12) GN=gyrB" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="2149.0687" massdiff="1.299" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IYEHGVPQAPLAVTGETEK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="291"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.3"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1423" all_ntt_prob="(0.0016,0.0048,0.1423)"> <search_score_summary> <parameter name="fval" value="0.3266"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.299"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0235102" all_ntt_prob="(0.000232506,0.000699434,0.0235102)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03674.03674.3" start_scan="3674" end_scan="3674" precursor_neutral_mass="2130.7318" assumed_charge="3" index="210" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LLQLPAIYALETPFVSLIK" peptide_prev_aa="K" peptide_next_aa="Y" protein="sp|P39359|YJHH_ECOLI" protein_descr="Uncharacterized protein yjhH OS=Escherichia coli (strain K12) GN=yjhH" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="72" calc_neutral_pep_mass="2128.2547" massdiff="2.477" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="356"/> <search_score name="nextscore" value="310"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1475" all_ntt_prob="(0.0017,0.0050,0.1475)"> <search_score_summary> <parameter name="fval" value="0.5294"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.477"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244933" all_ntt_prob="(0.000247059,0.000728703,0.0244933)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03442.03442.3" start_scan="3442" end_scan="3442" precursor_neutral_mass="2090.5656" assumed_charge="3" index="218" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGIVMLLSVGLLLAGCSGSK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|Q46798|YGER_ECOLI" protein_descr="Uncharacterized lipoprotein ygeR OS=Escherichia coli (strain K12) GN=ygeR" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="80" calc_neutral_pep_mass="2090.1477" massdiff="0.418" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SLGIVM[147]LLSVGLLLAGCSGSK"> <mod_aminoacid_mass position="6" mass="147.0354"/> <mod_aminoacid_mass position="17" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="296"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0667" all_ntt_prob="(0.0007,0.0021,0.0667)"> <search_score_summary> <parameter name="fval" value="0.4854"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.418"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0102646" all_ntt_prob="(0.000101643,0.000305295,0.0102646)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03879.03879.3" start_scan="3879" end_scan="3879" precursor_neutral_mass="1979.3631" assumed_charge="3" index="221" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IGIAFSGGLDTSAALLWMR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P0A6E4|ASSY_ECOLI" protein_descr="Argininosuccinate synthase OS=Escherichia coli (strain K12) GN=argG" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="72" calc_neutral_pep_mass="1978.0347" massdiff="1.328" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" value="304"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2586" all_ntt_prob="(0.0034,0.0099,0.2586)"> <search_score_summary> <parameter name="fval" value="0.7768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.328"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0481783" all_ntt_prob="(0.000494838,0.00144893,0.0481783)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00249.00249.3" start_scan="249" end_scan="249" precursor_neutral_mass="1959.3603" assumed_charge="3" index="223" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MSHQHTTQTSGQGMLER" peptide_prev_aa="-" peptide_next_aa="V" protein="sp|P31466|PURP_ECOLI" protein_descr="Probable adenine permease PurP OS=Escherichia coli (strain K12) GN=purP" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="64" calc_neutral_pep_mass="1959.8527" massdiff="-0.492" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]SHQHTTQTSGQGM[147]LER"> <mod_aminoacid_mass position="1" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="365"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.49"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7261" all_ntt_prob="(0.0251,0.0709,0.7261)"> <search_score_summary> <parameter name="fval" value="2.9257"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.492"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.277823" all_ntt_prob="(0.00372232,0.0109527,0.277823)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01165.01165.3" start_scan="1165" end_scan="1165" precursor_neutral_mass="1926.6833" assumed_charge="3" index="226" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYDRVMEELYPRLK" peptide_prev_aa="R" peptide_next_aa="S" protein="sp|P09546|PUTA_ECOLI" protein_descr="Bifunctional protein putA OS=Escherichia coli (strain K12) GN=putA" 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</peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0428126" all_ntt_prob="(0.000436472,0.00128671,0.0428126)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01685.01685.3" start_scan="1685" end_scan="1685" precursor_neutral_mass="1881.1020" assumed_charge="3" index="228" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IQSGELSAIPHQLIMDK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1878.9877" massdiff="2.114" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="335"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.62"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6948" all_ntt_prob="(0.0216,0.0615,0.6948)"> <search_score_summary> <parameter name="fval" value="2.2091"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.114"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386593" all_ntt_prob="(0.00607464,0.0178181,0.386593)"> <search_score_summary> <parameter name="nss" value="0.1456"/> <parameter name="nrs" value="0.4436"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01595.01595.3" start_scan="1595" end_scan="1595" precursor_neutral_mass="1862.0731" assumed_charge="3" index="230" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.099" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="382"/> <search_score name="nextscore" value="342"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.37"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0619" all_ntt_prob="(0.0006,0.0019,0.0619)"> <search_score_summary> <parameter name="fval" value="0.4374"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.099"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00710381" all_ntt_prob="(6.50923e-005,0.000206365,0.00710381)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.449"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00733.00733.3" start_scan="733" end_scan="733" precursor_neutral_mass="1796.1121" assumed_charge="3" index="234" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="37" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="1.163" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.4063,0.6703,0.9860)"> <search_score_summary> <parameter name="fval" value="4.8621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.163"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.970702" all_ntt_prob="(0.243537,0.488861,0.970702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4198"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00752.00752.3" start_scan="752" end_scan="752" precursor_neutral_mass="1795.5034" assumed_charge="3" index="235" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TKPHVNVGTIGHVDHGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="33" tot_num_ions="64" calc_neutral_pep_mass="1794.9487" massdiff="0.555" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="T"/> <search_score name="hyperscore" value="286"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.87"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0008,0.0025,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.0527"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.555"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0769772" all_ntt_prob="(0.000765198,0.00239142,0.0769772)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.486"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01514.01514.2" start_scan="1514" end_scan="1514" precursor_neutral_mass="1774.0746" assumed_charge="2" index="238" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVSVPGMPVTLLNMSK" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P39220|YABP_ECOLI" protein_descr="Putative uncharacterized protein yabP OS=Escherichia coli (strain K12) GN=yabP" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="30" calc_neutral_pep_mass="1773.9367" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="KVSVPGM[147]PVTLLNM[147]SK"> <mod_aminoacid_mass position="7" mass="147.0354"/> <mod_aminoacid_mass position="14" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="199"/> <search_score name="nextscore" value="162"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0805" all_ntt_prob="(0.0000,0.0006,0.0805)"> <search_score_summary> <parameter name="fval" value="-0.6946"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0125453" all_ntt_prob="(0,8.71152e-005,0.0125453)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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probability="0.9885" all_ntt_prob="(0.0000,0.3858,0.9885)"> <search_score_summary> <parameter name="fval" value="4.2085"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.925782" all_ntt_prob="(0,0.0835385,0.925782)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01802.01802.2" start_scan="1802" end_scan="1802" precursor_neutral_mass="1727.4522" assumed_charge="2" index="243" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNPVVPEVVNQVCFK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AC38|ASPA_ECOLI" protein_descr="Aspartate ammonia-lyase OS=Escherichia coli (strain K12) GN=aspA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1726.9077" massdiff="0.545" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNPVVPEVVNQVCFK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="328"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0089"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6649,0.9963)"> <search_score_summary> <parameter name="fval" value="4.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.545"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999419" all_ntt_prob="(0,0.926883,0.999419)"> <search_score_summary> <parameter name="nss" value="0.9852"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02131.02131.2" start_scan="2131" end_scan="2131" precursor_neutral_mass="1714.4000" assumed_charge="2" index="244" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ITTVQAAIDYINGHQA" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="30" calc_neutral_pep_mass="1713.8687" massdiff="0.531" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="439"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" value="7.1656"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.531"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998572,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.194"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01684.01684.3" start_scan="1684" end_scan="1684" precursor_neutral_mass="1705.9674" assumed_charge="3" index="246" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QHVPVFVTDEMVGHK" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0A7U3|RS19_ECOLI" protein_descr="30S ribosomal protein S19 OS=Escherichia coli (strain K12) GN=rpsS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="56" calc_neutral_pep_mass="1704.8297" massdiff="1.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]HVPVFVTDEMVGHK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="319"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0634" all_ntt_prob="(0.0007,0.0019,0.0634)"> <search_score_summary> <parameter name="fval" value="-0.2000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0151518" all_ntt_prob="(0.000159181,0.000432465,0.0151518)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00672.00672.2" start_scan="672" end_scan="672" precursor_neutral_mass="1688.7380" assumed_charge="2" index="247" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTAMNPVDHPHGGGEGR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P60422|RL2_ECOLI" protein_descr="50S ribosomal protein L2 OS=Escherichia coli (strain K12) GN=rplB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="32" calc_neutral_pep_mass="1687.7487" massdiff="0.989" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="272"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5040" all_ntt_prob="(0.0000,0.0074,0.5040)"> <search_score_summary> <parameter name="fval" value="0.5768"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.989"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.955208" all_ntt_prob="(0,0.135292,0.955208)"> <search_score_summary> <parameter name="nss" value="0.8068"/> <parameter name="nrs" value="0.4478"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02348.02348.2" start_scan="2348" end_scan="2348" precursor_neutral_mass="1679.7643" assumed_charge="2" index="248" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ALLNSMVIGVTEGFTK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AG55|RL6_ECOLI" protein_descr="50S ribosomal protein L6 OS=Escherichia coli (strain K12) GN=rplF" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1678.8967" massdiff="0.868" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="501"/> <search_score name="nextscore" value="261"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9523,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0285"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.868"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.992318,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00664.00664.3" start_scan="664" end_scan="664" precursor_neutral_mass="1675.3355" assumed_charge="3" index="249" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LFVDVQSDIIDTPGR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P62554|CCDB_ECOLI" protein_descr="Cytotoxic protein CcdB OS=Escherichia coli (strain K12) GN=ccdB" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="56" calc_neutral_pep_mass="1673.8627" massdiff="1.473" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="467"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9017" all_ntt_prob="(0.0817,0.2090,0.9017)"> <search_score_summary> <parameter name="fval" value="3.0306"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.473"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.571028" all_ntt_prob="(0.0127464,0.0369274,0.571028)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01808.01808.2" start_scan="1808" end_scan="1808" precursor_neutral_mass="1660.0414" assumed_charge="2" index="250" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="1.154" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="479"/> <search_score name="nextscore" value="218"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9068,0.9992)"> <search_score_summary> <parameter name="fval" value="7.5245"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.154"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999863" all_ntt_prob="(0,0.982749,0.999863)"> <search_score_summary> <parameter name="nss" value="0.9768"/> <parameter name="nrs" value="-0.087"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01434.01434.3" start_scan="1434" end_scan="1434" precursor_neutral_mass="1657.8872" assumed_charge="3" index="251" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAKR" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A7R5|RS10_ECOLI" protein_descr="30S ribosomal protein S10 OS=Escherichia coli (strain K12) GN=rpsJ" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="56" calc_neutral_pep_mass="1656.9047" massdiff="0.983" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="320"/> <search_score name="nextscore" value="266"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2393" all_ntt_prob="(0.0030,0.0090,0.2393)"> <search_score_summary> <parameter name="fval" value="0.7134"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.983"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0564486" all_ntt_prob="(0.000571921,0.00172416,0.0564486)"> <search_score_summary> <parameter name="nss" value="0.1521"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01814.01814.2" start_scan="1814" end_scan="1814" precursor_neutral_mass="1647.1708" assumed_charge="2" index="254" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STLTPVVISNMDEIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69783|PTGA_ECOLI" protein_descr="Glucose-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=crr" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1645.8597" massdiff="1.311" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="331"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0027"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9868" all_ntt_prob="(0.0000,0.3530,0.9868)"> <search_score_summary> <parameter name="fval" value="4.0872"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.311"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997863" all_ntt_prob="(0,0.773126,0.997863)"> <search_score_summary> <parameter name="nss" value="0.9769"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01777.01777.2" start_scan="1777" end_scan="1777" precursor_neutral_mass="1615.3095" assumed_charge="2" index="257" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VALDPLTGPMPYQGR" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A836|SUCC_ECOLI" protein_descr="Succinyl-CoA ligase [ADP-forming] subunit beta OS=Escherichia coli (strain K12) GN=sucC" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1613.8237" massdiff="1.486" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="184"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0037"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9942" all_ntt_prob="(0.0000,0.5554,0.9942)"> <search_score_summary> <parameter name="fval" value="4.8412"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.486"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999331" all_ntt_prob="(0,0.915882,0.999331)"> <search_score_summary> <parameter name="nss" value="0.9413"/> <parameter name="nrs" value="0.4914"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02150.02150.2" start_scan="2150" end_scan="2150" precursor_neutral_mass="1605.3076" assumed_charge="2" index="258" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FNQIGSLTETLAAIK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0A6P9|ENO_ECOLI" protein_descr="Enolase OS=Escherichia coli (strain K12) GN=eno" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1604.8777" massdiff="0.430" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="405"/> <search_score name="nextscore" value="227"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0024"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8695,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5538"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.430"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999933" all_ntt_prob="(0,0.990988,0.999933)"> <search_score_summary> <parameter name="nss" value="0.9878"/> <parameter name="nrs" value="0.9299"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04168.04168.2" start_scan="4168" end_scan="4168" precursor_neutral_mass="1604.0711" assumed_charge="2" index="259" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SADLISIGPMLQGMR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A9M8|PTA_ECOLI" protein_descr="Phosphate acetyltransferase OS=Escherichia coli (strain K12) GN=pta" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="28" calc_neutral_pep_mass="1603.8057" massdiff="0.265" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="SADLISIGPM[147]LQGMR"> <mod_aminoacid_mass position="10" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="183"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.93"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0770" all_ntt_prob="(0.0000,0.0006,0.0770)"> <search_score_summary> <parameter name="fval" value="-0.7185"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.265"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result 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name="nextscore" value="274"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.033"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9970" all_ntt_prob="(0.0000,0.7101,0.9970)"> <search_score_summary> <parameter name="fval" value="5.5445"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.603"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999692" all_ntt_prob="(0,0.959885,0.999692)"> <search_score_summary> <parameter name="nss" value="0.977"/> <parameter name="nrs" value="0.4984"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03332.03332.3" start_scan="3332" end_scan="3332" precursor_neutral_mass="1576.6472" assumed_charge="3" index="261" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYFTFLMPDSLTR" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76464|YFAS_ECOLI" protein_descr="Putative UPF0192 protein yfaS OS=Escherichia coli (strain K12) GN=yfaS" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="48" calc_neutral_pep_mass="1576.7597" massdiff="-0.113" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AYFTFLM[147]PDSLTR"> <mod_aminoacid_mass position="7" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="359"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2212" all_ntt_prob="(0.0027,0.0081,0.2212)"> <search_score_summary> <parameter name="fval" value="1.3473"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.113"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0395857" all_ntt_prob="(0.000392724,0.00118365,0.0395857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04318.04318.2" start_scan="4318" end_scan="4318" precursor_neutral_mass="1562.4659" assumed_charge="2" index="264" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQLYAFDPALEGLR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="26" calc_neutral_pep_mass="1562.8097" massdiff="-0.344" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="185"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> 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peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60723|RL4_ECOLI" protein_descr="50S ribosomal protein L4 OS=Escherichia coli (strain K12) GN=rplD" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1560.8037" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="299"/> <search_score name="nextscore" value="177"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9923" all_ntt_prob="(0.0000,0.4864,0.9923)"> <search_score_summary> <parameter name="fval" value="3.7213"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> 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<parameter name="massd" value="1.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.994" all_ntt_prob="(0,0.547645,0.994)"> <search_score_summary> <parameter name="nss" value="0.9212"/> <parameter name="nrs" value="0.4957"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02260.02260.2" start_scan="2260" end_scan="2260" precursor_neutral_mass="1512.6423" assumed_charge="2" index="274" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLPIPVVITVYADR" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A7J7|RL11_ECOLI" protein_descr="50S ribosomal protein L11 OS=Escherichia coli (strain K12) GN=rplK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="26" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02314.02314.2" start_scan="2314" end_scan="2314" precursor_neutral_mass="1503.2645" assumed_charge="2" index="278" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AQYLIDQLLAEAR" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="24" calc_neutral_pep_mass="1502.8097" massdiff="0.455" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="524"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.003"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9532,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99996" all_ntt_prob="(0,0.995174,0.99996)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8783"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.271"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.202619" all_ntt_prob="(0,0.00184839,0.202619)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01549.01549.2" start_scan="1549" end_scan="1549" precursor_neutral_mass="1454.9408" assumed_charge="2" index="287" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VILAGEVTTPVTVR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli 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<search_score name="nextscore" value="254"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9973" all_ntt_prob="(0.0000,0.7288,0.9973)"> <search_score_summary> <parameter name="fval" value="5.6499"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.065"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999842" all_ntt_prob="(0,0.978702,0.999842)"> <search_score_summary> <parameter name="nss" value="0.9713"/> <parameter name="nrs" value="0.9933"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6853,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4309"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.640"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999805" all_ntt_prob="(0,0.973707,0.999805)"> <search_score_summary> <parameter name="nss" value="0.9725"/> <parameter name="nrs" value="0.9864"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02057.02057.2" start_scan="2057" end_scan="2057" 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<search_score_summary> <parameter name="fval" value="-0.3922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.096"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.173858" all_ntt_prob="(0,0.00157816,0.173858)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01412.01412.2" start_scan="1412" end_scan="1412" precursor_neutral_mass="1412.8274" assumed_charge="2" index="293" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VANLGSLGDQVNVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" 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is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8896,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7728"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999971" all_ntt_prob="(0,0.996003,0.999971)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="1.3966"/> <parameter 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.56"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5444" all_ntt_prob="(0.0000,0.0087,0.5444)"> <search_score_summary> <parameter name="fval" value="1.4555"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.217"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.156038" all_ntt_prob="(0,0.00135611,0.156038)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.0818"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1215" all_ntt_prob="(0.0000,0.0010,0.1215)"> <search_score_summary> <parameter name="fval" value="-0.4659"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.423"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0196754" all_ntt_prob="(0,0.000145242,0.0196754)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00991.00991.2" start_scan="991" end_scan="991" precursor_neutral_mass="1358.5030" assumed_charge="2" index="303" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AEITPANADTVTR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1357.6837" massdiff="0.819" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="213"/> <search_score name="nextscore" value="158"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4348" all_ntt_prob="(0.0000,0.0056,0.4348)"> <search_score_summary> <parameter name="fval" value="0.4259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.819"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.100426" all_ntt_prob="(0,0.000816568,0.100426)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00902.00902.2" start_scan="902" end_scan="902" precursor_neutral_mass="1348.3896" assumed_charge="2" index="304" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QSVDQPVQTGYK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0ABB0|ATPA_ECOLI" protein_descr="ATP synthase subunit alpha OS=Escherichia coli (strain K12) GN=atpA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1348.6627" massdiff="-0.273" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="258"/> <search_score name="nextscore" value="172"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.18"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7939" all_ntt_prob="(0.0000,0.0274,0.7939)"> <search_score_summary> <parameter name="fval" value="2.1844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.273"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.454711" all_ntt_prob="(0,0.00606173,0.454711)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4523"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02093.02093.2" start_scan="2093" end_scan="2093" precursor_neutral_mass="1343.1554" assumed_charge="2" index="305" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAEQIYIPVLIK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1342.7857" massdiff="0.370" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="438"/> <search_score name="nextscore" value="235"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9190,0.9994)"> <search_score_summary> <parameter name="fval" value="6.1992"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.370"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999982" all_ntt_prob="(0,0.997402,0.999982)"> <search_score_summary> <parameter name="nss" value="0.9719"/> <parameter name="nrs" value="1.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04623.04623.3" start_scan="4623" end_scan="4623" precursor_neutral_mass="1340.2076" assumed_charge="3" index="306" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ESLPQMLRGLSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A7A7|PLSB_ECOLI" protein_descr="Glycerol-3-phosphate acyltransferase OS=Escherichia coli (strain K12) GN=plsB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="44" calc_neutral_pep_mass="1339.7277" massdiff="0.480" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="E[111]SLPQMLRGLSK"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="523"/> <search_score name="nextscore" value="366"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.04"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6548" all_ntt_prob="(0.0181,0.0518,0.6548)"> <search_score_summary> <parameter name="fval" value="5.5393"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.480"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215852" all_ntt_prob="(0.00266791,0.00786539,0.215852)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00950.00950.2" start_scan="950" end_scan="950" precursor_neutral_mass="1338.8288" assumed_charge="2" index="307" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SSEVYGQTNIGGK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6F3|GLPK_ECOLI" protein_descr="Glycerol kinase OS=Escherichia coli (strain K12) GN=glpK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="24" calc_neutral_pep_mass="1338.6417" massdiff="0.187" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="191"/> <search_score name="nextscore" value="138"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.011"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2941" all_ntt_prob="(0.0000,0.0030,0.2941)"> <search_score_summary> <parameter name="fval" value="0.1003"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.187"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0858112" all_ntt_prob="(0,0.000677467,0.0858112)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4915"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01200.01200.2" start_scan="1200" end_scan="1200" precursor_neutral_mass="1336.1581" assumed_charge="2" index="308" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGYAEDEVVAVSK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P68066|GRCA_ECOLI" protein_descr="Autonomous glycyl radical cofactor OS=Escherichia coli (strain K12) GN=grcA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1336.6507" massdiff="-0.493" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="357"/> <search_score name="nextscore" value="180"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0065"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9956" all_ntt_prob="(0.0000,0.6253,0.9956)"> <search_score_summary> <parameter name="fval" value="5.5470"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.493"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998871" all_ntt_prob="(0,0.867159,0.998871)"> <search_score_summary> <parameter name="nss" value="0.8552"/> <parameter name="nrs" value="-0.0586"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00907.00907.2" start_scan="907" end_scan="907" precursor_neutral_mass="1332.0508" assumed_charge="2" index="309" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LTGMVQDAQQNK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P09394|GLPQ_ECOLI" protein_descr="Glycerophosphoryl diester phosphodiesterase OS=Escherichia coli (strain K12) GN=glpQ" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="22" calc_neutral_pep_mass="1331.6507" massdiff="0.400" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5443" all_ntt_prob="(0.0000,0.0087,0.5443)"> <search_score_summary> <parameter name="fval" value="0.6655"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.400"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.147726" all_ntt_prob="(0,0.00127198,0.147726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02813.02813.2" start_scan="2813" end_scan="2813" precursor_neutral_mass="1328.8760" assumed_charge="2" index="310" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWLQAIESVIR" peptide_prev_aa="R" peptide_next_aa="E" protein="sp|P0AFG8|ODP1_ECOLI" protein_descr="Pyruvate dehydrogenase E1 component OS=Escherichia coli (strain K12) GN=aceE" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1328.7087" massdiff="0.167" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="355"/> <search_score name="nextscore" 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name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.144"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999287" all_ntt_prob="(0,0.910865,0.999287)"> <search_score_summary> <parameter name="nss" value="0.9614"/> <parameter name="nrs" value="0.4947"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01074.01074.2" start_scan="1074" end_scan="1074" precursor_neutral_mass="1315.0351" assumed_charge="2" index="313" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="STCTGVEMFRK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1314.6057" massdiff="0.429" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="L"/> <modification_info modified_peptide="STCTGVEMFRK"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.016"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9568" all_ntt_prob="(0.0000,0.1394,0.9568)"> <search_score_summary> <parameter name="fval" value="2.4295"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.429"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99481" all_ntt_prob="(0,0.583675,0.99481)"> <search_score_summary> <parameter name="nss" value="0.954"/> <parameter name="nrs" value="0.4454"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02285.02285.2" start_scan="2285" end_scan="2285" precursor_neutral_mass="1313.0462" assumed_charge="2" index="314" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LVTDELVIALVK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69441|KAD_ECOLI" protein_descr="Adenylate kinase OS=Escherichia coli (strain K12) GN=adk" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1311.8017" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="510"/> <search_score name="nextscore" value="346"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0064"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6829,0.9966)"> <search_score_summary> <parameter name="fval" value="5.4023"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999641" all_ntt_prob="(0,0.953356,0.999641)"> <search_score_summary> <parameter name="nss" value="0.9664"/> <parameter name="nrs" value="0.4996"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01255.01255.2" start_scan="1255" end_scan="1255" precursor_neutral_mass="1289.7158" assumed_charge="2" index="317" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AYGSTNPINVVR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7W1|RS5_ECOLI" protein_descr="30S ribosomal protein S5 OS=Escherichia coli (strain K12) GN=rpsE" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="22" calc_neutral_pep_mass="1289.6727" massdiff="0.043" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="462"/> <search_score name="nextscore" value="239"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.8e-005"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9408,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6702"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.043"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999965" all_ntt_prob="(0,0.995646,0.999965)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.8138"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01159.01159.2" start_scan="1159" end_scan="1159" precursor_neutral_mass="1283.8468" assumed_charge="2" index="319" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGTVTPNVAEAVK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1283.7087" massdiff="0.138" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="338"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.035"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9957" all_ntt_prob="(0.0000,0.6260,0.9957)"> <search_score_summary> <parameter name="fval" value="4.1973"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.138"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999909" all_ntt_prob="(0,0.987593,0.999909)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.7469"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00099.00099.2" start_scan="99" end_scan="99" precursor_neutral_mass="1274.6694" assumed_charge="2" index="320" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MATLTTGVVLLR" peptide_prev_aa="-" peptide_next_aa="W" protein="sp|P32700|YJCB_ECOLI" protein_descr="Uncharacterized protein yjcB OS=Escherichia coli (strain K12) GN=yjcB" num_tot_proteins="1" num_matched_ions="8" tot_num_ions="22" calc_neutral_pep_mass="1273.7427" massdiff="0.927" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="256"/> <search_score name="nextscore" value="215"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.53"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3614" all_ntt_prob="(0.0000,0.0041,0.3614)"> <search_score_summary> <parameter name="fval" value="0.2616"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.927"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.075893" all_ntt_prob="(0,0.000597075,0.075893)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01164.01164.2" start_scan="1164" end_scan="1164" precursor_neutral_mass="1272.4334" assumed_charge="2" index="321" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EHNAEVTGFIR" peptide_prev_aa="K" peptide_next_aa="F" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1271.6257" massdiff="0.808" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9860" all_ntt_prob="(0.0000,0.3403,0.9860)"> <search_score_summary> <parameter name="fval" value="3.2497"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.808"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997593" all_ntt_prob="(0,0.752217,0.997593)"> <search_score_summary> <parameter name="nss" value="0.9564"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02034.02034.2" start_scan="2034" end_scan="2034" precursor_neutral_mass="1267.3497" assumed_charge="2" index="322" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LINYLVEEFK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1266.6857" massdiff="0.664" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="212"/> <search_score name="nextscore" value="161"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3395" all_ntt_prob="(0.0000,0.0037,0.3395)"> <search_score_summary> <parameter name="fval" value="0.2107"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.664"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0589668" all_ntt_prob="(0,0.000452534,0.0589668)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.2498"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00888.00888.2" start_scan="888" end_scan="888" precursor_neutral_mass="1263.6228" assumed_charge="2" index="323" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VADGATVVSTSTR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P36683|ACON2_ECOLI" protein_descr="Aconitate hydratase 2 OS=Escherichia coli (strain K12) GN=acnB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="24" calc_neutral_pep_mass="1262.6467" massdiff="0.976" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="422"/> <search_score name="nextscore" value="201"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9409,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6718"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.976"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993827,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9892"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01924.01924.2" start_scan="1924" end_scan="1924" precursor_neutral_mass="1261.6739" assumed_charge="2" index="324" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGNLAFLDVTGR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0ACJ8|CRP_ECOLI" protein_descr="Catabolite gene activator OS=Escherichia coli (strain K12) GN=crp" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="22" calc_neutral_pep_mass="1260.6827" massdiff="0.991" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="303"/> <search_score name="nextscore" value="182"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9921" all_ntt_prob="(0.0000,0.4773,0.9921)"> <search_score_summary> <parameter name="fval" value="3.6920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.991"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998497" all_ntt_prob="(0,0.828532,0.998497)"> <search_score_summary> <parameter name="nss" value="0.9234"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01666.01666.2" start_scan="1666" end_scan="1666" precursor_neutral_mass="1254.4724" assumed_charge="2" index="326" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GFGFITPEDGSK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="22" calc_neutral_pep_mass="1253.5927" massdiff="0.880" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="347"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.12"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9833" all_ntt_prob="(0.0000,0.3014,0.9833)"> <search_score_summary> <parameter name="fval" value="3.1168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.880"/> 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massdiff="0.470" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="311"/> <search_score name="nextscore" value="228"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.083"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9536" all_ntt_prob="(0.0000,0.1305,0.9536)"> <search_score_summary> <parameter name="fval" value="2.3786"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.470"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.748896" all_ntt_prob="(0,0.0213159,0.748896)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01500.01500.2" start_scan="1500" end_scan="1500" precursor_neutral_mass="1242.9612" assumed_charge="2" index="328" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEGGVVDLNTLK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P02413|RL15_ECOLI" protein_descr="50S ribosomal protein L15 OS=Escherichia coli (strain K12) GN=rplO" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="22" calc_neutral_pep_mass="1242.6817" massdiff="0.279" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="210"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5749" all_ntt_prob="(0.0000,0.0098,0.5749)" analysis="adjusted"> <search_score_summary> <parameter name="fval" value="0.8958"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.279"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.131677" all_ntt_prob="(0,0.00110854,0.131677)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.3887"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01462.01462.2" start_scan="1462" end_scan="1462" precursor_neutral_mass="1222.6206" assumed_charge="2" index="329" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVGQLGQVLGPR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="22" calc_neutral_pep_mass="1221.7197" massdiff="0.901" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="379"/> <search_score name="nextscore" value="175"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="7.3e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9246,0.9994)"> <search_score_summary> <parameter name="fval" value="6.3026"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.901"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999939" all_ntt_prob="(0,0.991826,0.999939)"> <search_score_summary> <parameter name="nss" value="0.9812"/> <parameter name="nrs" value="0.4997"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01267.01267.2" start_scan="1267" end_scan="1267" precursor_neutral_mass="1217.4356" assumed_charge="2" index="330" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AVMALTALASDR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P75736|YBFF_ECOLI" protein_descr="Esterase ybfF OS=Escherichia coli (strain K12) GN=ybfF" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="22" calc_neutral_pep_mass="1217.6437" massdiff="-0.208" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="247"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0888" all_ntt_prob="(0.0000,0.0007,0.0888)"> <search_score_summary> <parameter name="fval" value="0.0613"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.208"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0139451" all_ntt_prob="(0,0.000101643,0.0139451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01577.01577.2" start_scan="1577" end_scan="1577" precursor_neutral_mass="1214.2900" assumed_charge="2" index="332" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AALIDCLAPDR" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P0A910|OMPA_ECOLI" protein_descr="Outer membrane protein A OS=Escherichia coli (strain K12) GN=ompA" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1213.6127" massdiff="0.677" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AALIDCLAPDR"> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="489"/> <search_score name="nextscore" value="255"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0044"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9487,0.9996)"> <search_score_summary> <parameter name="fval" value="6.9038"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.677"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999978" all_ntt_prob="(0,0.997019,0.999978)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="0.9969"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01116.01116.2" start_scan="1116" end_scan="1116" precursor_neutral_mass="1202.3451" assumed_charge="2" index="333" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SAGGIVLTGSAAAK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1201.6667" massdiff="0.678" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="385"/> <search_score name="nextscore" value="186"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00041"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9160,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1471"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.678"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99993" all_ntt_prob="(0,0.99098,0.99993)"> <search_score_summary> <parameter name="nss" value="0.9885"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01816.01816.2" start_scan="1816" end_scan="1816" precursor_neutral_mass="1196.0909" assumed_charge="2" index="335" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1195.6387" massdiff="0.452" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="QLPCPAELLR"> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="270"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6519" all_ntt_prob="(0.0000,0.0135,0.6519)"> <search_score_summary> <parameter name="fval" value="0.9163"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.452"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.831151" all_ntt_prob="(0,0.0347211,0.831151)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.2936"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9966"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02554.02554.2" start_scan="2554" end_scan="2554" precursor_neutral_mass="1189.3492" assumed_charge="2" index="336" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGLTFLVDLIK" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEX9|MALE_ECOLI" protein_descr="Maltose-binding periplasmic protein OS=Escherichia coli (strain K12) GN=malE" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="20" calc_neutral_pep_mass="1188.7117" massdiff="0.637" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="465"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9980" all_ntt_prob="(0.0000,0.7879,0.9980)"> <search_score_summary> <parameter name="fval" value="4.9363"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.637"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999686" all_ntt_prob="(0,0.959454,0.999686)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01606.01606.2" start_scan="1606" end_scan="1606" precursor_neutral_mass="1186.6277" assumed_charge="2" index="337" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTLGQDVIDIR" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0ABH7|CISY_ECOLI" protein_descr="Citrate synthase OS=Escherichia coli (strain K12) GN=gltA" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="20" calc_neutral_pep_mass="1185.6357" massdiff="0.992" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="371"/> <search_score name="nextscore" value="247"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.063"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9944" all_ntt_prob="(0.0000,0.5641,0.9944)"> <search_score_summary> <parameter name="fval" value="3.9777"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.992"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999066" all_ntt_prob="(0,0.886269,0.999066)"> <search_score_summary> <parameter name="nss" value="0.9641"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02273.02273.2" start_scan="2273" end_scan="2273" precursor_neutral_mass="1179.3977" assumed_charge="2" index="338" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QLPCPAELLR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1178.6117" massdiff="0.786" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]LPCPAELLR"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="4" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="407"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9966" all_ntt_prob="(0.0000,0.6790,0.9966)"> <search_score_summary> <parameter name="fval" value="4.4048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.786"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997729" all_ntt_prob="(0,0.760214,0.997729)"> <search_score_summary> <parameter name="nss" value="0.7883"/> <parameter name="nrs" value="-0.1281"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01877.01877.2" start_scan="1877" end_scan="1877" precursor_neutral_mass="1172.6158" assumed_charge="2" index="339" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QIDLAPEEFK" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|Q46837|ACFD_ECOLI" protein_descr="Putative lipoprotein AcfD homolog OS=Escherichia coli (strain K12) GN=yghJ" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="18" calc_neutral_pep_mass="1171.5757" massdiff="1.040" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]IDLAPEEFK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="236"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.69"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7548" all_ntt_prob="(0.0000,0.0220,0.7548)"> <search_score_summary> <parameter name="fval" value="1.7967"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.040"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.390963" all_ntt_prob="(0,0.00466908,0.390963)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4148"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01492.01492.2" start_scan="1492" end_scan="1492" precursor_neutral_mass="1171.1460" assumed_charge="2" index="340" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1170.6497" massdiff="0.496" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="K" peptide_next_aa="E"/> <search_score name="hyperscore" value="527"/> <search_score name="nextscore" value="387"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0071"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9981" all_ntt_prob="(0.0000,0.7909,0.9981)"> <search_score_summary> <parameter name="fval" value="4.9548"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.496"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999973" all_ntt_prob="(0,0.996318,0.999973)"> <search_score_summary> <parameter name="nss" value="0.9841"/> <parameter name="nrs" value="2.4862"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00726.00726.2" start_scan="726" end_scan="726" precursor_neutral_mass="1164.9355" assumed_charge="2" index="342" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LDDGTTAESTR" peptide_prev_aa="K" peptide_next_aa="N" protein="sp|P0AEM0|FKBX_ECOLI" protein_descr="FKBP-type 16 kDa peptidyl-prolyl cis-trans isomerase OS=Escherichia coli (strain K12) GN=fkpB" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="20" calc_neutral_pep_mass="1164.5257" massdiff="0.410" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="192"/> <search_score name="nextscore" value="153"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0822" all_ntt_prob="(0.0000,0.0007,0.0822)"> <search_score_summary> <parameter name="fval" value="-0.6833"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.410"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128303" all_ntt_prob="(0,0.000101643,0.0128303)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9447" all_ntt_prob="(0.0000,0.1109,0.9447)"> <search_score_summary> <parameter name="fval" value="2.2562"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.713"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.790206" all_ntt_prob="(0,0.0267656,0.790206)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4704"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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index="351" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HEAWITLEK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AG67|RS1_ECOLI" protein_descr="30S ribosomal protein S1 OS=Escherichia coli (strain K12) GN=rpsA" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="16" calc_neutral_pep_mass="1125.5817" massdiff="0.159" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="398"/> <search_score name="nextscore" value="234"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.028"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8237,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1695"/> <parameter 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<search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.77"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3322" all_ntt_prob="(0.0000,0.0036,0.3322)"> <search_score_summary> <parameter name="fval" value="0.1935"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.290"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.382952" all_ntt_prob="(0,0.00448733,0.382952)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9195"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> 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value="0.9901"/> <parameter name="nrs" value="0.4982"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01732.01732.2" start_scan="1732" end_scan="1732" precursor_neutral_mass="1082.2839" assumed_charge="2" index="360" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="0.609" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="487"/> <search_score name="nextscore" value="363"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0055"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9967" all_ntt_prob="(0.0000,0.6892,0.9967)"> <search_score_summary> <parameter name="fval" value="4.4472"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.609"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999659" all_ntt_prob="(0,0.955598,0.999659)"> <search_score_summary> <parameter name="nss" value="0.9854"/> <parameter name="nrs" value="0.4697"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01230.01230.2" start_scan="1230" end_scan="1230" precursor_neutral_mass="1044.7219" assumed_charge="2" index="362" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GALSAVVADSR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A7J3|RL10_ECOLI" protein_descr="50S ribosomal protein L10 OS=Escherichia coli (strain K12) GN=rplJ" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1044.5567" massdiff="0.165" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="481"/> <search_score name="nextscore" value="191"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2e-006"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9722,0.9998)"> <search_score_summary> <parameter name="fval" value="8.1764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.165"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999968" all_ntt_prob="(0,0.995479,0.999968)"> <search_score_summary> <parameter name="nss" value="0.9798"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01019.01019.2" start_scan="1019" end_scan="1019" precursor_neutral_mass="1035.2540" assumed_charge="2" index="363" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.270" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="235"/> <search_score name="nextscore" value="193"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0861" all_ntt_prob="(0.0000,0.0007,0.0861)"> <search_score_summary> <parameter name="fval" value="0.0434"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.270"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0197702" all_ntt_prob="(0,0.000149939,0.0197702)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4412"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00928.00928.2" start_scan="928" end_scan="928" precursor_neutral_mass="1033.8288" assumed_charge="2" index="364" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGAATEVEMK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="18" calc_neutral_pep_mass="1033.5117" massdiff="0.317" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="196"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0066"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8642,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5022"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.317"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99989" all_ntt_prob="(0,0.984609,0.99989)"> <search_score_summary> <parameter name="nss" value="0.9899"/> <parameter name="nrs" value="0.4924"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01426.01426.2" start_scan="1426" end_scan="1426" precursor_neutral_mass="1027.0506" assumed_charge="2" index="365" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1026.5817" massdiff="0.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="504"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.021"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9989" all_ntt_prob="(0.0000,0.8678,0.9989)"> <search_score_summary> <parameter name="fval" value="5.5370"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999938" all_ntt_prob="(0,0.991508,0.999938)"> <search_score_summary> <parameter name="nss" value="0.99"/> <parameter name="nrs" value="0.9842"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00922.00922.2" start_scan="922" end_scan="922" precursor_neutral_mass="1014.4295" assumed_charge="2" index="366" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IETLLEVR" peptide_prev_aa="M" peptide_next_aa="N" protein="sp|P0AAH8|SAPF_ECOLI" protein_descr="Peptide transport system ATP-binding protein sapF OS=Escherichia coli (strain K12) GN=sapF" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="14" calc_neutral_pep_mass="1013.5757" massdiff="0.854" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="310"/> <search_score name="nextscore" value="265"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6989" all_ntt_prob="(0.0000,0.0167,0.6989)"> <search_score_summary> <parameter name="fval" value="1.0382"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.854"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.279129" all_ntt_prob="(0,0.00282517,0.279129)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1724"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03234.03234.2" start_scan="3234" end_scan="3234" precursor_neutral_mass="989.1871" assumed_charge="2" index="367" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YFHIADPK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P24188|YCEA_ECOLI" protein_descr="UPF0176 protein yceA OS=Escherichia coli (strain K12) GN=yceA" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="989.4967" massdiff="-0.310" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="252"/> <search_score name="nextscore" value="208"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.98"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1421" all_ntt_prob="(0.0000,0.0012,0.1421)"> <search_score_summary> <parameter name="fval" value="0.3415"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.310"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0234726" all_ntt_prob="(0,0.00017432,0.0234726)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03217.03217.2" start_scan="3217" end_scan="3217" precursor_neutral_mass="987.6717" assumed_charge="2" index="368" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HATMQSLGK" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="16" calc_neutral_pep_mass="987.4807" massdiff="0.191" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HATM[147]QSLGK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="173"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1856" all_ntt_prob="(0.0000,0.0017,0.1856)"> <search_score_summary> <parameter name="fval" value="-0.2124"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.191"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200903" all_ntt_prob="(0,0.000153173,0.0200903)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.8472"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01450.01450.2" start_scan="1450" end_scan="1450" precursor_neutral_mass="974.7975" assumed_charge="2" index="369" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGGAIKTTTR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P33924|YEJO_ECOLI" protein_descr="Putative uncharacterized outer membrane protein yejO OS=Escherichia coli (strain K12) GN=yejO" num_tot_proteins="1" num_matched_ions="14" tot_num_ions="18" calc_neutral_pep_mass="974.5507" massdiff="0.247" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="260"/> <search_score name="nextscore" value="189"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.76"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0716" all_ntt_prob="(0.0000,0.0006,0.0716)"> <search_score_summary> <parameter name="fval" value="1.5666"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.247"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0110679" all_ntt_prob="(0,8.71152e-005,0.0110679)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01121.01121.2" start_scan="1121" end_scan="1121" precursor_neutral_mass="964.7741" assumed_charge="2" index="371" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VHIINLEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0A7V0|RS2_ECOLI" protein_descr="30S ribosomal protein S2 OS=Escherichia coli (strain K12) GN=rpsB" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="14" calc_neutral_pep_mass="964.5707" massdiff="0.203" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="313"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9935" all_ntt_prob="(0.0000,0.5264,0.9935)"> <search_score_summary> <parameter name="fval" value="3.8517"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.203"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.971287" all_ntt_prob="(0,0.197426,0.971287)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4741"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04252.04252.1" start_scan="4252" end_scan="4252" precursor_neutral_mass="963.9894" assumed_charge="1" index="372" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SKAASASENT" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|P37019|CLCA_ECOLI" protein_descr="H(+)\Cl(-) exchange transporter ClcA OS=Escherichia coli (strain K12) GN=clcA" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="18" calc_neutral_pep_mass="964.4457" massdiff="-0.456" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="146"/> <search_score name="nextscore" value="121"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="150"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7446" all_ntt_prob="(0.0000,0.7500,0.7446)"> <search_score_summary> <parameter name="fval" value="0.4125"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.456"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.495223" all_ntt_prob="(0,0.502372,0.495223)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.8483"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04224.04224.1" start_scan="4224" end_scan="4224" precursor_neutral_mass="959.5383" assumed_charge="1" index="373" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YSMLSGMR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P37627|YHIJ_ECOLI" protein_descr="Uncharacterized protein yhiJ OS=Escherichia coli (strain K12) GN=yhiJ" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="14" calc_neutral_pep_mass="959.4207" massdiff="0.118" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="YSM[147]LSGMR"> <mod_aminoacid_mass position="3" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="130"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6618" all_ntt_prob="(0.0000,0.6682,0.6618)"> <search_score_summary> <parameter name="fval" value="1.0048"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.118"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.221166" all_ntt_prob="(0,0.226154,0.221166)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01048.01048.2" start_scan="1048" end_scan="1048" precursor_neutral_mass="921.8449" assumed_charge="2" index="374" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YTQLIER" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P0ADZ4|RS15_ECOLI" protein_descr="30S ribosomal protein S15 OS=Escherichia coli (strain K12) GN=rpsO" num_tot_proteins="1" num_matched_ions="13" tot_num_ions="12" calc_neutral_pep_mass="921.4917" massdiff="0.353" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="321"/> <search_score name="nextscore" value="221"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="4.1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9810" all_ntt_prob="(0.0000,0.2742,0.9810)"> <search_score_summary> <parameter name="fval" value="3.0198"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.353"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997862" all_ntt_prob="(0,0.773476,0.997862)"> <search_score_summary> <parameter name="nss" value="0.9756"/> <parameter name="nrs" value="0.4255"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04272.04272.1" start_scan="4272" end_scan="4272" precursor_neutral_mass="882.8528" assumed_charge="1" index="375" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDTMCK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P09323|PTW3C_ECOLI" protein_descr="PTS system N-acetylglucosamine-specific EIICBA component OS=Escherichia coli (strain K12) GN=nagE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="12" calc_neutral_pep_mass="882.3577" massdiff="0.495" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="VNDTM[147]CK"> <mod_aminoacid_mass position="5" mass="147.0354"/> <mod_aminoacid_mass position="6" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="121"/> <search_score name="nextscore" value="109"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="260"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0604" all_ntt_prob="(0.0000,0.0621,0.0604)"> <search_score_summary> <parameter name="fval" value="-1.0450"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.495"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00924233" all_ntt_prob="(0,0.00951704,0.00924233)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03967.03967.1" start_scan="3967" end_scan="3967" precursor_neutral_mass="865.0550" assumed_charge="1" index="376" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MKKGGMAK" peptide_prev_aa="K" peptide_next_aa="M" protein="sp|P0AGD7|SRP54_ECOLI" protein_descr="Signal recognition particle protein OS=Escherichia coli (strain K12) GN=ffh" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="14" calc_neutral_pep_mass="865.4517" massdiff="-0.397" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="MKKGGM[147]AK"> <mod_aminoacid_mass position="6" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="179"/> <search_score name="nextscore" value="133"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="78"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9454" all_ntt_prob="(0.0000,0.9468,0.9454)"> <search_score_summary> <parameter name="fval" value="2.1024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.397"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.71532" all_ntt_prob="(0,0.720877,0.71532)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04417.04417.1" start_scan="4417" end_scan="4417" precursor_neutral_mass="860.4786" assumed_charge="1" index="377" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GTKTEVVK" peptide_prev_aa="R" peptide_next_aa="C" protein="sp|P0AAB4|UBID_ECOLI" protein_descr="3-octaprenyl-4-hydroxybenzoate carboxy-lyase OS=Escherichia coli (strain K12) GN=ubiD" num_tot_proteins="1" num_matched_ions="3" tot_num_ions="14" calc_neutral_pep_mass="860.4967" massdiff="-0.018" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="124"/> <search_score name="nextscore" value="115"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1001" all_ntt_prob="(0.0000,0.1027,0.1001)"> <search_score_summary> <parameter name="fval" value="-1.3712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.018"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0158857" all_ntt_prob="(0,0.016338,0.0158857)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04154.04154.1" start_scan="4154" end_scan="4154" precursor_neutral_mass="848.6778" assumed_charge="1" index="378" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTQTVSGR" peptide_prev_aa="M" peptide_next_aa="R" protein="sp|P0AGI1|RBSC_ECOLI" protein_descr="Ribose transport system permease protein rbsC OS=Escherichia coli (strain K12) GN=rbsC" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="14" calc_neutral_pep_mass="848.4347" massdiff="0.243" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="3.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0505" all_ntt_prob="(0.0000,0.0519,0.0505)"> <search_score_summary> <parameter name="fval" value="-1.1404"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.243"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00765909" all_ntt_prob="(0,0.00788128,0.00765909)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04505.04505.1" start_scan="4505" end_scan="4505" precursor_neutral_mass="818.2555" assumed_charge="1" index="379" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GDDGKAEK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P39831|YDFG_ECOLI" protein_descr="NADP-dependent L-serine\L-allo-threonine dehydrogenase ydfG OS=Escherichia coli (strain K12) GN=ydfG" num_tot_proteins="1" num_matched_ions="6" tot_num_ions="14" calc_neutral_pep_mass="818.3767" massdiff="-0.121" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="129"/> <search_score name="nextscore" value="118"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1602" all_ntt_prob="(0.0000,0.1641,0.1602)"> <search_score_summary> <parameter name="fval" value="-1.1000"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.029183" all_ntt_prob="(0,0.0300074,0.029183)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.1043"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04485.04485.1" start_scan="4485" end_scan="4485" precursor_neutral_mass="802.6579" assumed_charge="1" index="380" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLNEQDK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P16682|PHND_ECOLI" protein_descr="Phosphonates-binding periplasmic protein OS=Escherichia coli (strain K12) GN=phnD" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="802.3817" massdiff="0.276" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="119"/> <search_score name="nextscore" value="103"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1387" all_ntt_prob="(0.0000,0.1421,0.1387)"> <search_score_summary> <parameter name="fval" value="-0.5764"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.276"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0228355" all_ntt_prob="(0,0.0234726,0.0228355)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03074.03074.1" start_scan="3074" end_scan="3074" precursor_neutral_mass="800.3805" assumed_charge="1" index="381" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELEAAMR" peptide_prev_aa="K" peptide_next_aa="D" protein="sp|P0A6B7|ISCS_ECOLI" protein_descr="Cysteine desulfurase OS=Escherichia coli (strain K12) GN=iscS" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="12" calc_neutral_pep_mass="800.3850" massdiff="-0.004" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="E[111]LEAAMR"> <mod_aminoacid_mass position="1" mass="111.0320"/> </modification_info> <search_score name="hyperscore" value="126"/> <search_score name="nextscore" value="100"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="230"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5306" all_ntt_prob="(0.0000,0.5377,0.5306)"> <search_score_summary> <parameter name="fval" value="0.5839"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.004"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.138096" all_ntt_prob="(0,0.141527,0.138096)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0312"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03104.03104.1" start_scan="3104" end_scan="3104" precursor_neutral_mass="800.2202" assumed_charge="1" index="382" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="PLLTDSR" peptide_prev_aa="N" peptide_next_aa="R" protein="sp|P23485|FECR_ECOLI" protein_descr="Protein fecR OS=Escherichia coli (strain K12) GN=fecR" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="12" calc_neutral_pep_mass="800.4387" massdiff="-0.219" num_tol_term="1" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="137"/> <search_score name="nextscore" value="107"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.6544" all_ntt_prob="(0.0000,0.6544,0.6479)"> <search_score_summary> <parameter name="fval" value="0.9539"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.215553" all_ntt_prob="(0,0.215553,0.210753)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03059.03059.1" start_scan="3059" end_scan="3059" precursor_neutral_mass="795.7858" assumed_charge="1" index="383" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGYDAAGR" peptide_prev_aa="R" peptide_next_aa="L" protein="sp|P16919|RHSD_ECOLI" protein_descr="Protein rhsD OS=Escherichia coli (strain K12) GN=rhsD" num_tot_proteins="1" num_matched_ions="4" tot_num_ions="14" calc_neutral_pep_mass="795.3507" massdiff="0.435" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="135"/> <search_score name="nextscore" value="123"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="190"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0727" all_ntt_prob="(0.0000,0.0746,0.0727)"> <search_score_summary> <parameter name="fval" value="-0.9455"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.435"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0112492" all_ntt_prob="(0,0.0115632,0.0112492)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03316.03316.1" start_scan="3316" end_scan="3316" precursor_neutral_mass="670.4462" assumed_charge="1" index="384" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GSLLPGK" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P76578|YFHM_ECOLI" protein_descr="Uncharacterized lipoprotein yfhM OS=Escherichia coli (strain K12) GN=yfhM" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="12" calc_neutral_pep_mass="670.4017" massdiff="0.044" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="138"/> <search_score name="nextscore" value="127"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="180"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0624" all_ntt_prob="(0.0000,0.0641,0.0624)"> <search_score_summary> <parameter name="fval" value="-1.0276"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.044"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00956561" all_ntt_prob="(0,0.00984132,0.00956561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04667.04667.3" start_scan="4667" end_scan="4667" precursor_neutral_mass="2720.0050" assumed_charge="3" index="385" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TMPVGLPGLAAACFILGVLLYSTVVR" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AF40|YIJD_ECOLI" protein_descr="Inner membrane protein yijD OS=Escherichia coli (strain K12) GN=yijD" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="100" calc_neutral_pep_mass="2717.5017" massdiff="2.503" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TMPVGLPGLAAACFILGVLLYSTVVR"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="300"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3446" all_ntt_prob="(0.0051,0.0149,0.3446)"> <search_score_summary> <parameter name="fval" value="0.4550"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.503"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0708917" all_ntt_prob="(0.000743341,0.00219015,0.0708917)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03912.03912.3" start_scan="3912" end_scan="3912" precursor_neutral_mass="2680.2086" assumed_charge="3" index="387" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GYSLTIPIAQEDGAPVSTILDETYK" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0A6J5|DADA_ECOLI" protein_descr="D-amino acid dehydrogenase small subunit OS=Escherichia coli (strain K12) GN=dadA" num_tot_proteins="1" num_matched_ions="28" tot_num_ions="96" calc_neutral_pep_mass="2680.3487" massdiff="-0.140" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="383"/> <search_score name="nextscore" value="345"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="2.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0540" all_ntt_prob="(0.0006,0.0016,0.0540)"> <search_score_summary> <parameter name="fval" value="0.3510"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.140"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00821561" all_ntt_prob="(8.71152e-005,0.000232506,0.00821561)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02513.02513.3" start_scan="2513" end_scan="2513" precursor_neutral_mass="2178.2488" assumed_charge="3" index="400" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LQQPDIVETLITLPETQLK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P69828|PTKA_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIA component OS=Escherichia coli (strain K12) GN=gatA" num_tot_proteins="1" num_matched_ions="37" tot_num_ions="72" calc_neutral_pep_mass="2178.2147" massdiff="0.034" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="271"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0064,0.0188,0.3994)"> <search_score_summary> <parameter name="fval" value="1.9158"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.034"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0848494" all_ntt_prob="(0.000897247,0.00266425,0.0848494)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.0535"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02597.02597.3" start_scan="2597" end_scan="2597" precursor_neutral_mass="2116.5688" assumed_charge="3" index="405" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AIDKPFLLPIEDVFSISGR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" num_tot_proteins="2" num_matched_ions="34" tot_num_ions="72" calc_neutral_pep_mass="2116.1567" massdiff="0.412" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <alternative_protein protein="sp|P0CE48|EFTU2_ECOLI" protein_descr="Elongation factor Tu 2 OS=Escherichia coli (strain K12) GN=tufB" num_tol_term="2" peptide_prev_aa="R" peptide_next_aa="G"/> <search_score name="hyperscore" value="336"/> <search_score name="nextscore" value="260"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4274" all_ntt_prob="(0.0072,0.0210,0.4274)"> <search_score_summary> <parameter name="fval" value="1.9957"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.412"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.808691" all_ntt_prob="(0.0394508,0.108321,0.808691)"> <search_score_summary> <parameter name="nss" value="0.6259"/> <parameter name="nrs" value="3.99999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03744.03744.3" start_scan="3744" end_scan="3744" precursor_neutral_mass="2116.0590" assumed_charge="3" index="406" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QTIVALLLSVGASSVFAAGTVK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P32688|YJBG_ECOLI" protein_descr="Uncharacterized protein yjbG OS=Escherichia coli (strain K12) GN=yjbG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="84" calc_neutral_pep_mass="2114.1987" massdiff="1.860" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]TIVALLLSVGASSVFAAGTVK"> <mod_aminoacid_mass position="1" mass="111.0321"/> </modification_info> <search_score name="hyperscore" value="325"/> <search_score name="nextscore" value="280"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.95"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0968" all_ntt_prob="(0.0010,0.0031,0.0968)"> <search_score_summary> <parameter name="fval" value="0.2427"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.860"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0153147" all_ntt_prob="(0.000145242,0.00045106,0.0153147)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01936.01936.3" start_scan="1936" end_scan="1936" precursor_neutral_mass="2074.8402" assumed_charge="3" index="407" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TLGLLATIVGALYGGILMQR" peptide_prev_aa="K" peptide_next_aa="L" protein="sp|P0AE16|AMPG_ECOLI" protein_descr="Protein AmpG OS=Escherichia coli (strain K12) GN=ampG" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="76" calc_neutral_pep_mass="2075.1817" massdiff="-0.342" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="TLGLLATIVGALYGGILM[147]QR"> <mod_aminoacid_mass position="18" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="345"/> <search_score name="nextscore" value="293"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1011" all_ntt_prob="(0.0011,0.0032,0.1011)"> <search_score_summary> <parameter name="fval" value="0.7621"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.342"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0160594" all_ntt_prob="(0.00015978,0.00046565,0.0160594)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01956.01956.3" start_scan="1956" end_scan="1956" precursor_neutral_mass="2039.5497" assumed_charge="3" index="408" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="RLPGAAEATLPLQSSGGAGER" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P76577|PBPC_ECOLI" protein_descr="Penicillin-binding protein 1C OS=Escherichia coli (strain K12) GN=pbpC" num_tot_proteins="1" num_matched_ions="32" tot_num_ions="80" calc_neutral_pep_mass="2037.0607" massdiff="2.489" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.9"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0823" all_ntt_prob="(0.0009,0.0026,0.0823)"> <search_score_summary> <parameter name="fval" value="0.1375"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.489"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0128471" all_ntt_prob="(0.000130706,0.000378146,0.0128471)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01482.01482.3" start_scan="1482" end_scan="1482" precursor_neutral_mass="2022.5581" assumed_charge="3" index="409" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="ELCQNHNIPVELIQCR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P37188|PTKB_ECOLI" protein_descr="Galactitol-specific phosphotransferase enzyme IIB component OS=Escherichia coli (strain K12) GN=gatB" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="60" calc_neutral_pep_mass="2021.9777" massdiff="0.580" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="ELCQNHNIPVELIQCR"> <mod_aminoacid_mass position="3" mass="160.0306"/> <mod_aminoacid_mass position="15" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="306"/> <search_score name="nextscore" value="263"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.39"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0844" all_ntt_prob="(0.0009,0.0026,0.0844)"> <search_score_summary> <parameter name="fval" value="-0.0202"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.580"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0132004" all_ntt_prob="(0.000130706,0.000378146,0.0132004)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00537.00537.2" start_scan="537" end_scan="537" precursor_neutral_mass="1999.4651" assumed_charge="2" index="413" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="HWCGVAFIIGGIVILGSTV" peptide_prev_aa="R" peptide_next_aa="-" protein="sp|Q47377|ARNE_ECOLI" protein_descr="Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE OS=Escherichia coli (strain K12) GN=arnE" num_tot_proteins="1" num_matched_ions="7" tot_num_ions="36" calc_neutral_pep_mass="1998.0757" massdiff="1.389" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="HWCGVAFIIGGIVILGSTV"> <mod_aminoacid_mass position="3" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="284"/> <search_score name="nextscore" value="226"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.5542" all_ntt_prob="(0.0000,0.0090,0.5542)"> <search_score_summary> <parameter name="fval" value="1.2508"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.389"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.152833" all_ntt_prob="(0,0.00131618,0.152833)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00853.00853.3" start_scan="853" end_scan="853" precursor_neutral_mass="1944.6059" assumed_charge="3" index="415" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NDAADLGAAGGMGGMGGMGGMM" peptide_prev_aa="K" peptide_next_aa="-" protein="sp|P0A6F5|CH60_ECOLI" protein_descr="60 kDa chaperonin OS=Escherichia coli (strain K12) GN=groL" num_tot_proteins="1" num_matched_ions="34" tot_num_ions="84" calc_neutral_pep_mass="1943.7307" massdiff="0.875" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="NDAADLGAAGGMGGM[147]GGMGGMM"> <mod_aminoacid_mass position="15" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="272"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.83"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1266" all_ntt_prob="(0.0014,0.0042,0.1266)"> <search_score_summary> <parameter name="fval" value="0.2462"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.875"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0206016" all_ntt_prob="(0.000203408,0.00061169,0.0206016)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03359.03359.3" start_scan="3359" end_scan="3359" precursor_neutral_mass="1910.0775" assumed_charge="3" index="418" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MIAGLETITSGDLFIGEK" peptide_prev_aa="R" peptide_next_aa="R" protein="sp|P68187|MALK_ECOLI" protein_descr="Maltose\maltodextrin import ATP-binding protein MalK OS=Escherichia coli (strain K12) GN=malK" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="68" calc_neutral_pep_mass="1909.9707" massdiff="0.107" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="M[147]IAGLETITSGDLFIGEK"> <mod_aminoacid_mass position="1" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="359"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0584" all_ntt_prob="(0.0006,0.0018,0.0584)"> <search_score_summary> <parameter name="fval" value="0.4005"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.107"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00892021" all_ntt_prob="(8.71152e-005,0.000261614,0.00892021)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01524.01524.3" start_scan="1524" end_scan="1524" precursor_neutral_mass="1890.3847" assumed_charge="3" index="421" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CYEGVHALLDNGYQPR" peptide_prev_aa="R" peptide_next_aa="Q" protein="sp|P38036|YGCB_ECOLI" protein_descr="Uncharacterized protein ygcB OS=Escherichia coli (strain K12) GN=ygcB" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="60" calc_neutral_pep_mass="1890.8687" massdiff="-0.484" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="CYEGVHALLDNGYQPR"> <mod_aminoacid_mass position="1" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="372"/> <search_score name="nextscore" value="254"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9185" all_ntt_prob="(0.0985,0.2451,0.9185)"> <search_score_summary> <parameter name="fval" value="4.1494"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.484"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.62056" all_ntt_prob="(0.0156084,0.0449965,0.62056)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01589.01589.3" start_scan="1589" end_scan="1589" precursor_neutral_mass="1861.7380" assumed_charge="3" index="424" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KVAVLGAAGGIGQALALLLK" peptide_prev_aa="M" peptide_next_aa="T" protein="sp|P61889|MDH_ECOLI" protein_descr="Malate dehydrogenase OS=Escherichia coli (strain K12) GN=mdh" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="76" calc_neutral_pep_mass="1862.1717" massdiff="-0.434" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="327"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.44"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0510" all_ntt_prob="(0.0005,0.0015,0.0510)"> <search_score_summary> <parameter name="fval" value="0.3152"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.434"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00582763" all_ntt_prob="(5.45619e-005,0.000163832,0.00582763)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="-0.4381"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03615.03615.2" start_scan="3615" end_scan="3615" precursor_neutral_mass="1822.2730" assumed_charge="2" index="428" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="QAITSAGTGCMAALDAER" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0A9P4|TRXB_ECOLI" protein_descr="Thioredoxin reductase OS=Escherichia coli (strain K12) GN=trxB" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="34" calc_neutral_pep_mass="1820.8037" massdiff="1.469" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="Q[111]AITSAGTGCM[147]AALDAER"> <mod_aminoacid_mass position="1" mass="111.0321"/> <mod_aminoacid_mass position="10" mass="160.0306"/> <mod_aminoacid_mass position="11" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="233"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.36"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1471" all_ntt_prob="(0.0000,0.0013,0.1471)"> <search_score_summary> <parameter name="fval" value="0.1583"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.469"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0244174" all_ntt_prob="(0,0.000188863,0.0244174)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01594.01594.3" start_scan="1594" end_scan="1594" precursor_neutral_mass="1795.1440" assumed_charge="3" index="431" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NIFGYQYTIPTHQGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="56" calc_neutral_pep_mass="1793.8847" massdiff="1.259" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="318"/> <search_score name="nextscore" value="259"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.51"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3280" all_ntt_prob="(0.0047,0.0139,0.3280)"> <search_score_summary> <parameter name="fval" value="0.9858"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.259"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.066146" all_ntt_prob="(0.000684804,0.00204139,0.066146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.04705.04705.2" start_scan="4705" end_scan="4705" precursor_neutral_mass="1705.6340" assumed_charge="2" index="439" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VNDIMHTGDEIPHVK" peptide_prev_aa="R" peptide_next_aa="K" protein="sp|P45395|KDSD_ECOLI" protein_descr="Arabinose 5-phosphate isomerase OS=Escherichia coli (strain K12) GN=kdsD" num_tot_proteins="1" num_matched_ions="10" tot_num_ions="28" calc_neutral_pep_mass="1703.8297" massdiff="1.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="236"/> <search_score name="nextscore" value="188"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1933" all_ntt_prob="(0.0000,0.0017,0.1933)"> <search_score_summary> <parameter name="fval" value="0.3327"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0336043" all_ntt_prob="(0,0.000247059,0.0336043)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00840.00840.3" start_scan="840" end_scan="840" precursor_neutral_mass="1701.0829" assumed_charge="3" index="440" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="FMLASSVTDSQIKFK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P52138|YFJW_ECOLI" protein_descr="Uncharacterized protein yfjW OS=Escherichia coli (strain K12) GN=yfjW" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="56" calc_neutral_pep_mass="1700.8807" massdiff="0.202" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="314"/> <search_score name="nextscore" value="224"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.23"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0854" all_ntt_prob="(0.0009,0.0027,0.0854)"> <search_score_summary> <parameter name="fval" value="2.7515"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.202"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0133691" all_ntt_prob="(0.000130706,0.000392724,0.0133691)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02124.02124.2" start_scan="2124" end_scan="2124" precursor_neutral_mass="1686.4647" assumed_charge="2" index="443" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="MEFPEPVISIAVEPK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0A6M8|EFG_ECOLI" protein_descr="Elongation factor G OS=Escherichia coli (strain K12) GN=fusA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="28" calc_neutral_pep_mass="1684.8747" massdiff="1.590" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="246"/> <search_score name="nextscore" value="217"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0558" all_ntt_prob="(0.0000,0.0004,0.0558)"> <search_score_summary> <parameter name="fval" value="-0.3940"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.590"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.01534" all_ntt_prob="(0,0.000105477,0.01534)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.6385"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00836.00836.2" start_scan="836" end_scan="836" precursor_neutral_mass="1684.6246" assumed_charge="2" index="445" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AAQYVASHPGEVCPAK" peptide_prev_aa="K" peptide_next_aa="W" protein="sp|P0AE08|AHPC_ECOLI" protein_descr="Alkyl hydroperoxide reductase subunit C OS=Escherichia coli (strain K12) GN=ahpC" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="30" calc_neutral_pep_mass="1683.8037" massdiff="0.821" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="AAQYVASHPGEVCPAK"> <mod_aminoacid_mass position="13" mass="160.0306"/> </modification_info> <search_score name="hyperscore" value="295"/> <search_score name="nextscore" value="206"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.25"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9609" all_ntt_prob="(0.0000,0.1521,0.9609)"> <search_score_summary> <parameter name="fval" value="2.4981"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.821"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.938371" all_ntt_prob="(0,0.100024,0.938371)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.999999"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01238.01238.2" start_scan="1238" end_scan="1238" precursor_neutral_mass="1679.7390" assumed_charge="2" index="446" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GAVPGATGSDLIVKPAVK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="29" tot_num_ions="34" calc_neutral_pep_mass="1678.9617" massdiff="0.777" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="389"/> <search_score name="nextscore" value="225"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0012"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9984" all_ntt_prob="(0.0000,0.8225,0.9984)"> <search_score_summary> <parameter name="fval" value="5.1610"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.777"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997421" all_ntt_prob="(0,0.741739,0.997421)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0.9986"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01396.01396.3" start_scan="1396" end_scan="1396" precursor_neutral_mass="1672.5525" assumed_charge="3" index="447" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="NSDIQPTVESLKGKR" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0AEU0|HISJ_ECOLI" protein_descr="Histidine-binding periplasmic protein OS=Escherichia coli (strain K12) GN=hisJ" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="56" calc_neutral_pep_mass="1670.8947" massdiff="1.658" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="394"/> <search_score name="nextscore" value="312"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1249" all_ntt_prob="(0.0014,0.0041,0.1249)"> <search_score_summary> <parameter name="fval" value="2.4623"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.658"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0202918" all_ntt_prob="(0.000203408,0.000597075,0.0202918)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02371.02371.2" start_scan="2371" end_scan="2371" precursor_neutral_mass="1669.1655" assumed_charge="2" index="450" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EAVNQVIALLDSGALR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P0A9D8|DAPD_ECOLI" protein_descr="2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase OS=Escherichia coli (strain K12) GN=dapD" num_tot_proteins="1" num_matched_ions="27" tot_num_ions="30" calc_neutral_pep_mass="1667.9207" massdiff="1.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="215"/> <search_score name="nextscore" value="151"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4032" all_ntt_prob="(0.0000,0.0049,0.4032)"> <search_score_summary> <parameter name="fval" value="0.9011"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0892879" all_ntt_prob="(0,0.000714067,0.0892879)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01801.01801.2" start_scan="1801" end_scan="1801" precursor_neutral_mass="1660.9256" assumed_charge="2" index="452" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IINEPTAAALAYGLDK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="25" tot_num_ions="30" calc_neutral_pep_mass="1658.8877" massdiff="2.038" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="259"/> <search_score name="nextscore" value="171"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.19"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.4130" all_ntt_prob="(0.0000,0.0051,0.4130)"> <search_score_summary> <parameter name="fval" value="2.2734"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.038"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.137765" all_ntt_prob="(0,0.00116275,0.137765)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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<search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.28"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0883" all_ntt_prob="(0.0009,0.0028,0.0883)"> <search_score_summary> <parameter name="fval" value="2.1822"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="1.873"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0138601" all_ntt_prob="(0.000130706,0.000407304,0.0138601)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.5"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1237" all_ntt_prob="(0.0000,0.0010,0.1237)"> <search_score_summary> <parameter name="fval" value="0.0535"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.199"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0200738" all_ntt_prob="(0,0.000145242,0.0200738)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01799.01799.2" start_scan="1799" end_scan="1799" precursor_neutral_mass="1598.9006" assumed_charge="2" index="462" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SLGQFNLDGINPAPR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P0A6Y8|DNAK_ECOLI" protein_descr="Chaperone protein dnaK OS=Escherichia coli (strain K12) GN=dnaK" num_tot_proteins="1" num_matched_ions="26" tot_num_ions="28" calc_neutral_pep_mass="1597.8217" massdiff="1.079" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="410"/> <search_score name="nextscore" value="241"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.009"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9963" all_ntt_prob="(0.0000,0.6656,0.9963)"> <search_score_summary> <parameter name="fval" value="5.3168"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.079"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999621" all_ntt_prob="(0,0.951175,0.999621)"> <search_score_summary> <parameter name="nss" value="0.9771"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01562.01562.2" start_scan="1562" end_scan="1562" precursor_neutral_mass="1593.2718" assumed_charge="2" index="463" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VSQALDILTYTNKK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P61175|RL22_ECOLI" protein_descr="50S ribosomal protein L22 OS=Escherichia coli (strain K12) GN=rplV" num_tot_proteins="1" num_matched_ions="22" tot_num_ions="26" calc_neutral_pep_mass="1592.8777" massdiff="0.394" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="267"/> <search_score name="nextscore" value="166"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.038"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9758" all_ntt_prob="(0.0000,0.2276,0.9758)"> <search_score_summary> <parameter name="fval" value="2.8418"/> <parameter name="ntt" value="2"/> <parameter 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value="217"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9192" all_ntt_prob="(0.0000,0.0768,0.9192)"> <search_score_summary> <parameter name="fval" value="2.9226"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.278"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.702196" all_ntt_prob="(0,0.01695,0.702196)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4086"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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massdiff="0.348" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="426"/> <search_score name="nextscore" value="242"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00091"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9991" all_ntt_prob="(0.0000,0.8851,0.9991)"> <search_score_summary> <parameter name="fval" value="5.7195"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.348"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999885" all_ntt_prob="(0,0.983734,0.999885)"> <search_score_summary> <parameter name="nss" 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<search_hit hit_rank="1" peptide="VGDIVIFNDGYGVK" peptide_prev_aa="K" peptide_next_aa="S" protein="sp|P0A6F9|CH10_ECOLI" protein_descr="10 kDa chaperonin OS=Escherichia coli (strain K12) GN=groS" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="26" calc_neutral_pep_mass="1494.7717" massdiff="-0.054" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="343"/> <search_score name="nextscore" value="200"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9877" all_ntt_prob="(0.0000,0.3698,0.9877)"> <search_score_summary> <parameter name="fval" value="4.4921"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> 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<parameter name="nrs" value="0.4956"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01896.01896.2" start_scan="1896" end_scan="1896" precursor_neutral_mass="1467.8131" assumed_charge="2" index="487" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VETDFAAEVAAMSK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6P1|EFTS_ECOLI" protein_descr="Elongation factor Ts OS=Escherichia coli (strain K12) GN=tsf" num_tot_proteins="1" num_matched_ions="24" tot_num_ions="26" calc_neutral_pep_mass="1467.6917" massdiff="0.121" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="396"/> <search_score name="nextscore" value="179"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9391,0.9995)"> <search_score_summary> <parameter name="fval" value="6.6239"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.121"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999986" all_ntt_prob="(0,0.998166,0.999986)"> <search_score_summary> <parameter name="nss" value="0.9884"/> <parameter name="nrs" value="1.4968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> 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<peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8780,0.9990)"> <search_score_summary> <parameter name="fval" value="7.6964"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.150"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999969" all_ntt_prob="(0,0.99566,0.999969)"> <search_score_summary> <parameter name="nss" value="0.9525"/> <parameter name="nrs" value="1.4973"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01052.01052.2" start_scan="1052" end_scan="1052" precursor_neutral_mass="1460.7583" assumed_charge="2" index="489" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" 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value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00058"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9954" all_ntt_prob="(0.0000,0.6128,0.9954)"> <search_score_summary> <parameter name="fval" value="5.0770"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.039"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999733" all_ntt_prob="(0,0.964777,0.999733)"> <search_score_summary> <parameter name="nss" value="0.9747"/> <parameter name="nrs" value="0.9952"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> 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name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.46"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0982" all_ntt_prob="(0.0000,0.0008,0.0982)"> <search_score_summary> <parameter name="fval" value="-0.0814"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.177"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0155565" all_ntt_prob="(0,0.000116174,0.0155565)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00774.00774.3" start_scan="774" end_scan="774" precursor_neutral_mass="1434.3921" assumed_charge="3" index="494" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="CKIEQAPGQHGAR" peptide_prev_aa="K" peptide_next_aa="K" protein="sp|P0A7V8|RS4_ECOLI" protein_descr="30S ribosomal protein S4 OS=Escherichia coli (strain K12) GN=rpsD" num_tot_proteins="1" num_matched_ions="30" tot_num_ions="48" calc_neutral_pep_mass="1433.6837" massdiff="0.708" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <modification_info modified_peptide="C[143]KIEQAPGQHGAR"> <mod_aminoacid_mass position="1" mass="143.0041"/> </modification_info> <search_score name="hyperscore" value="406"/> <search_score name="nextscore" value="269"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.022"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.7724" all_ntt_prob="(0.0318,0.0890,0.7724)"> <search_score_summary> <parameter name="fval" value="4.9513"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.708"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.386885" all_ntt_prob="(0.00606998,0.0178412,0.386885)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.2946"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00776.00776.2" start_scan="776" end_scan="776" precursor_neutral_mass="1433.5787" assumed_charge="2" index="495" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="EQAAAQESANLSSK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P00957|SYA_ECOLI" protein_descr="Alanyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=alaS" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="26" calc_neutral_pep_mass="1432.6797" massdiff="0.899" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="264"/> <search_score name="nextscore" value="232"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.6"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2519" all_ntt_prob="(0.0000,0.0025,0.2519)"> <search_score_summary> <parameter name="fval" value="-0.0111"/> <parameter name="ntt" value="2"/> <parameter 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num_matched_ions="24" tot_num_ions="28" calc_neutral_pep_mass="1428.7457" massdiff="1.195" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="245"/> <search_score name="nextscore" value="149"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9096" all_ntt_prob="(0.0000,0.0685,0.9096)"> <search_score_summary> <parameter name="fval" value="2.5671"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.195"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.8471" 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value="171"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00076"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9946" all_ntt_prob="(0.0000,0.5760,0.9946)"> <search_score_summary> <parameter name="fval" value="5.3211"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.357"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999423" all_ntt_prob="(0,0.927402,0.999423)"> <search_score_summary> <parameter name="nss" value="0.7696"/> <parameter name="nrs" value="1.1415"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.00026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9458" all_ntt_prob="(0.0000,0.1132,0.9458)"> <search_score_summary> <parameter name="fval" value="2.2712"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.396"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.79835" all_ntt_prob="(0,0.0281461,0.79835)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4983"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01350.01350.2" start_scan="1350" end_scan="1350" precursor_neutral_mass="1414.9309" assumed_charge="2" 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<search_score name="nextscore" value="288"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00051"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9371,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5745"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.455"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999936" all_ntt_prob="(0,0.991439,0.999936)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0.2249"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.52"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0763" all_ntt_prob="(0.0000,0.0006,0.0763)"> <search_score_summary> <parameter name="fval" value="-0.7232"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.094"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0118451" all_ntt_prob="(0,8.71152e-005,0.0118451)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00039.00039.2" start_scan="39" end_scan="39" precursor_neutral_mass="1406.8521" 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<parameter name="nse" value="0"/> <parameter name="nsi" value="0.9998"/> <parameter name="nsm" value="0.9979"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01111.01111.2" start_scan="1111" end_scan="1111" precursor_neutral_mass="1376.1500" assumed_charge="2" index="508" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0A7L0|RL1_ECOLI" protein_descr="50S ribosomal protein L1 OS=Escherichia coli (strain K12) GN=rplA" num_tot_proteins="1" num_matched_ions="23" tot_num_ions="26" calc_neutral_pep_mass="1375.7097" massdiff="0.440" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> 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massdiff="1.223" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="226"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.31"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3994" all_ntt_prob="(0.0000,0.0048,0.3994)"> <search_score_summary> <parameter name="fval" value="0.8922"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.223"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.728813" all_ntt_prob="(0,0.0191193,0.728813)"> <search_score_summary> <parameter name="nss" 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value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9979" all_ntt_prob="(0.0000,0.7758,0.9979)"> <search_score_summary> <parameter name="fval" value="4.8668"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.957"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999666" all_ntt_prob="(0,0.95616,0.999666)"> <search_score_summary> <parameter name="nss" value="0.9802"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> 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<search_score name="xscore" value="0"/> <search_score name="expect" value="0.047"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9953" all_ntt_prob="(0.0000,0.6064,0.9953)"> <search_score_summary> <parameter name="fval" value="4.1259"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.986"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.99927" all_ntt_prob="(0,0.908704,0.99927)"> <search_score_summary> <parameter name="nss" value="0.9894"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01596.01596.2" start_scan="1596" end_scan="1596" precursor_neutral_mass="1305.5426" assumed_charge="2" index="523" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="SGVLTGLPDAYGR" peptide_prev_aa="K" peptide_next_aa="G" protein="sp|P09373|PFLB_ECOLI" protein_descr="Formate acetyltransferase 1 OS=Escherichia coli (strain K12) GN=pflB" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="24" calc_neutral_pep_mass="1304.6727" massdiff="0.870" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="334"/> <search_score name="nextscore" value="181"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.018"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9978" all_ntt_prob="(0.0000,0.7655,0.9978)"> <search_score_summary> <parameter name="fval" value="4.8096"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.870"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999877" all_ntt_prob="(0,0.983195,0.999877)"> <search_score_summary> <parameter name="nss" value="0.9895"/> <parameter name="nrs" value="0.991099"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02170.02170.2" start_scan="2170" end_scan="2170" precursor_neutral_mass="1303.1952" assumed_charge="2" index="525" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TTLTAAITTVLAK" peptide_prev_aa="K" peptide_next_aa="T" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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<search_score name="expect" value="0.11"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3925" all_ntt_prob="(0.0000,0.0047,0.3925)"> <search_score_summary> <parameter name="fval" value="1.0954"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.158"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0857219" all_ntt_prob="(0,0.000684804,0.0857219)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01882.01882.2" start_scan="1882" end_scan="1882" precursor_neutral_mass="1250.5907" assumed_charge="2" index="535" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="TGFNDSLLDIR" peptide_prev_aa="R" peptide_next_aa="Y" protein="sp|P0C8J8|GATZ_ECOLI" protein_descr="D-tagatose-1,6-bisphosphate aldolase subunit gatZ OS=Escherichia coli (strain K12) GN=gatZ" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1249.6307" massdiff="0.960" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="494"/> <search_score name="nextscore" value="248"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="2"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.026"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9997" all_ntt_prob="(0.0000,0.9558,0.9997)"> <search_score_summary> <parameter name="fval" 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<interprophet_result probability="0.995915" all_ntt_prob="(0,0.640896,0.995915)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01463.01463.2" start_scan="1463" end_scan="1463" precursor_neutral_mass="1243.9372" assumed_charge="2" index="538" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IAAANVPAFVSGK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0ACF0|DBHA_ECOLI" protein_descr="DNA-binding protein HU-alpha OS=Escherichia coli (strain K12) GN=hupA" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="24" calc_neutral_pep_mass="1243.6927" massdiff="0.245" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="268"/> <search_score name="nextscore" value="168"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.013"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9745" all_ntt_prob="(0.0000,0.2184,0.9745)"> <search_score_summary> <parameter name="fval" value="2.8042"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.245"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.939413" all_ntt_prob="(0,0.101827,0.939413)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.997399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> 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value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.00062"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9996" all_ntt_prob="(0.0000,0.9535,0.9996)"> <search_score_summary> <parameter name="fval" value="7.0722"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.428"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999991" all_ntt_prob="(0,0.998876,0.999991)"> <search_score_summary> <parameter name="nss" value="0.9863"/> <parameter name="nrs" value="0.4925"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0.9993"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00852.00852.2" start_scan="852" end_scan="852" 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value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.02"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9912" all_ntt_prob="(0.0000,0.4509,0.9912)"> <search_score_summary> <parameter name="fval" value="3.6074"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.704"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998904" all_ntt_prob="(0,0.869167,0.998904)"> <search_score_summary> <parameter name="nss" value="0.9166"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query 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value="0.8272"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0676934" all_ntt_prob="(0,0.000529298,0.0676934)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4966"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="1.5452"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01541.01541.2" start_scan="1541" end_scan="1541" precursor_neutral_mass="1171.0868" assumed_charge="2" index="552" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VGEEVEIVGIK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia 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num_matched_ions="15" tot_num_ions="20" calc_neutral_pep_mass="1168.6567" massdiff="0.783" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="346"/> <search_score name="nextscore" value="278"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.29"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9343" all_ntt_prob="(0.0000,0.0941,0.9343)"> <search_score_summary> <parameter name="fval" value="2.1367"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.783"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.9905" 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value="202"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.2"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9748" all_ntt_prob="(0.0000,0.2202,0.9748)"> <search_score_summary> <parameter name="fval" value="2.8115"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.573"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.89774" all_ntt_prob="(0,0.0602265,0.89774)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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value="0"/> <search_score name="expect" value="0.029"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9950" all_ntt_prob="(0.0000,0.5907,0.9950)"> <search_score_summary> <parameter name="fval" value="4.0699"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.562"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999444" all_ntt_prob="(0,0.928769,0.999444)"> <search_score_summary> <parameter name="nss" value="0.985"/> <parameter name="nrs" value="0.399"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01612.01612.2" start_scan="1612" end_scan="1612" precursor_neutral_mass="1153.3153" assumed_charge="2" index="558" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DWYVVDATGK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AA10|RL13_ECOLI" protein_descr="50S ribosomal protein L13 OS=Escherichia coli (strain K12) GN=rplM" num_tot_proteins="1" num_matched_ions="17" tot_num_ions="18" calc_neutral_pep_mass="1152.5447" massdiff="0.771" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="459"/> <search_score name="nextscore" value="281"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.015"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9990" all_ntt_prob="(0.0000,0.8746,0.9990)"> <search_score_summary> <parameter name="fval" value="5.6057"/> <parameter 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value="194"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.034"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9961" all_ntt_prob="(0.0000,0.6489,0.9961)"> <search_score_summary> <parameter name="fval" value="4.2844"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.595"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999763" all_ntt_prob="(0,0.968298,0.999763)"> <search_score_summary> <parameter name="nss" value="0.9707"/> <parameter name="nrs" value="0.968"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> 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assumed_charge="2" index="564" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VTVQSLDVVR" peptide_prev_aa="R" peptide_next_aa="V" protein="sp|P60438|RL3_ECOLI" protein_descr="50S ribosomal protein L3 OS=Escherichia coli (strain K12) GN=rplC" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="18" calc_neutral_pep_mass="1114.6347" massdiff="0.752" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="367"/> <search_score name="nextscore" value="222"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.042"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9972" all_ntt_prob="(0.0000,0.7207,0.9972)"> <search_score_summary> <parameter name="fval" 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coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="21" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.716" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="571"/> <search_score name="nextscore" value="377"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0097"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9993" all_ntt_prob="(0.0000,0.9164,0.9993)"> <search_score_summary> <parameter name="fval" value="6.1549"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.716"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999972" all_ntt_prob="(0,0.996427,0.999972)"> <search_score_summary> <parameter name="nss" value="0.9901"/> <parameter name="nrs" value="1.2524"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01379.01379.2" start_scan="1379" end_scan="1379" precursor_neutral_mass="1112.8266" assumed_charge="2" index="566" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="DLVESAPAALK" peptide_prev_aa="K" peptide_next_aa="E" protein="sp|P0A7K2|RL7_ECOLI" protein_descr="50S ribosomal protein L7\L12 OS=Escherichia coli (strain K12) GN=rplL" num_tot_proteins="1" num_matched_ions="19" tot_num_ions="20" calc_neutral_pep_mass="1112.6077" massdiff="0.219" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="308"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.24"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9415" all_ntt_prob="(0.0000,0.1053,0.9415)"> <search_score_summary> <parameter name="fval" value="2.2180"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.219"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.908579" all_ntt_prob="(0,0.0677541,0.908579)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.3102"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00038.00038.2" start_scan="38" end_scan="38" precursor_neutral_mass="1107.5660" assumed_charge="2" index="567" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LGFMSFYVK" peptide_prev_aa="R" peptide_next_aa="A" protein="sp|P0AFG6|ODO2_ECOLI" protein_descr="Dihydrolipoyllysine-residue succinyltransferase component of 2-oxoglutarate dehydrogenase complex OS=Escherichia coli (strain K12) GN=sucB" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1106.5467" massdiff="1.019" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <modification_info modified_peptide="LGFM[147]SFYVK"> <mod_aminoacid_mass position="4" mass="147.0354"/> </modification_info> <search_score name="hyperscore" value="190"/> <search_score name="nextscore" value="142"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="1.4"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0802" all_ntt_prob="(0.0000,0.0006,0.0802)"> <search_score_summary> <parameter name="fval" value="-0.1960"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.019"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0124951" all_ntt_prob="(0,8.71152e-005,0.0124951)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01318.01318.2" start_scan="1318" end_scan="1318" precursor_neutral_mass="1106.8976" assumed_charge="2" index="568" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VEFEITNGAK" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0A972|CSPE_ECOLI" protein_descr="Cold shock-like protein cspE OS=Escherichia coli (strain K12) GN=cspE" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1106.5607" massdiff="0.337" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="261"/> <search_score name="nextscore" value="190"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.16"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8525" all_ntt_prob="(0.0000,0.0405,0.8525)"> <search_score_summary> <parameter name="fval" value="1.5740"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.337"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.456146" all_ntt_prob="(0,0.00608805,0.456146)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01240.01240.2" start_scan="1240" end_scan="1240" precursor_neutral_mass="1098.5158" assumed_charge="2" index="569" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="LAEVLAAANAR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7R1|RL9_ECOLI" protein_descr="50S ribosomal protein L9 OS=Escherichia coli (strain K12) GN=rplI" num_tot_proteins="1" num_matched_ions="20" tot_num_ions="20" calc_neutral_pep_mass="1097.6197" massdiff="0.896" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="531"/> <search_score name="nextscore" value="316"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0017"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9343,0.9995)"> <search_score_summary> <parameter name="fval" value="6.5072"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.896"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999951" all_ntt_prob="(0,0.993095,0.999951)"> <search_score_summary> <parameter name="nss" value="0.9898"/> <parameter name="nrs" value="0.4986"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02032.02032.2" start_scan="2032" end_scan="2032" precursor_neutral_mass="1086.3746" assumed_charge="2" index="570" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GIDTVLAELR" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7M2|RL28_ECOLI" protein_descr="50S ribosomal protein L28 OS=Escherichia coli (strain K12) GN=rpmB" num_tot_proteins="1" num_matched_ions="18" tot_num_ions="18" calc_neutral_pep_mass="1085.6077" massdiff="0.767" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="425"/> <search_score name="nextscore" value="333"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.41"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9880" all_ntt_prob="(0.0000,0.3748,0.9880)"> <search_score_summary> <parameter name="fval" value="3.3634"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.767"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998542" all_ntt_prob="(0,0.832929,0.998542)"> <search_score_summary> <parameter name="nss" value="0.9256"/> <parameter name="nrs" value="0.4961"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01030.01030.2" start_scan="1030" end_scan="1030" precursor_neutral_mass="1083.7127" assumed_charge="2" index="571" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="KIIGEQLGVK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P0A6A8|ACP_ECOLI" protein_descr="Acyl carrier protein OS=Escherichia coli (strain K12) GN=acpP" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1083.6647" massdiff="0.048" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="237"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.17"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8345" all_ntt_prob="(0.0000,0.0355,0.8345)"> <search_score_summary> <parameter name="fval" value="1.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.048"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.864923" all_ntt_prob="(0,0.0446535,0.864923)"> <search_score_summary> <parameter name="nss" value="0.6148"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01726.01726.2" start_scan="1726" end_scan="1726" precursor_neutral_mass="1082.7772" assumed_charge="2" index="572" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VVEPLITLAK" peptide_prev_aa="R" peptide_next_aa="T" protein="sp|P0AG44|RL17_ECOLI" protein_descr="50S ribosomal protein L17 OS=Escherichia coli (strain K12) GN=rplQ" num_tot_proteins="1" num_matched_ions="12" tot_num_ions="18" calc_neutral_pep_mass="1081.6747" massdiff="1.102" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="414"/> <search_score name="nextscore" value="318"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.036"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9697" all_ntt_prob="(0.0000,0.1895,0.9697)"> <search_score_summary> <parameter name="fval" value="3.4024"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.102"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996103" all_ntt_prob="(0,0.651224,0.996103)"> <search_score_summary> <parameter name="nss" value="0.9137"/> <parameter name="nrs" value="0.4967"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01456.01456.2" start_scan="1456" end_scan="1456" precursor_neutral_mass="1055.3375" assumed_charge="2" index="574" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="GLTFTYEPK" peptide_prev_aa="K" peptide_next_aa="V" protein="sp|P0A853|TNAA_ECOLI" protein_descr="Tryptophanase OS=Escherichia coli (strain K12) GN=tnaA" num_tot_proteins="1" num_matched_ions="15" tot_num_ions="16" calc_neutral_pep_mass="1054.5337" massdiff="0.804" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="369"/> <search_score name="nextscore" value="282"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.0082"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.2371,0.9770)"> <search_score_summary> <parameter name="fval" value="2.8797"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.804"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.906054" all_ntt_prob="(0,0.0659116,0.906054)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03343.03343.2" start_scan="3343" end_scan="3343" precursor_neutral_mass="1049.8392" assumed_charge="2" index="575" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="YGSDKPDLR" peptide_prev_aa="R" peptide_next_aa="N" protein="sp|P21889|SYD_ECOLI" protein_descr="Aspartyl-tRNA synthetase OS=Escherichia coli (strain K12) GN=aspS" num_tot_proteins="1" num_matched_ions="9" tot_num_ions="16" calc_neutral_pep_mass="1049.5137" massdiff="0.325" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="229"/> <search_score name="nextscore" value="197"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.8"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.1129" all_ntt_prob="(0.0000,0.0009,0.1129)"> <search_score_summary> <parameter name="fval" value="-0.5078"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.325"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.018134" all_ntt_prob="(0,0.000130706,0.018134)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.03299.03299.1" start_scan="3299" end_scan="3299" precursor_neutral_mass="1048.4728" assumed_charge="1" index="576" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="IKAVGAYSAK" peptide_prev_aa="K" peptide_next_aa="Q" protein="sp|P75691|YAHK_ECOLI" protein_descr="Uncharacterized zinc-type alcohol dehydrogenase-like protein yahK OS=Escherichia coli (strain K12) GN=yahK" num_tot_proteins="1" num_matched_ions="5" tot_num_ions="18" calc_neutral_pep_mass="1048.5917" massdiff="-0.119" num_tol_term="2" num_missed_cleavages="1" is_rejected="0"> <search_score name="hyperscore" value="194"/> <search_score name="nextscore" value="164"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="0"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.94"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.8366" all_ntt_prob="(0.0000,0.8405,0.8366)"> <search_score_summary> <parameter name="fval" value="0.8157"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-0.119"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.426275" all_ntt_prob="(0,0.433335,0.426275)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.00995.00995.2" start_scan="995" end_scan="995" precursor_neutral_mass="1035.1557" assumed_charge="2" index="577" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="VYAAIEAGDK" peptide_prev_aa="K" peptide_next_aa="A" protein="sp|P0A7U7|RS20_ECOLI" protein_descr="30S ribosomal protein S20 OS=Escherichia coli (strain K12) GN=rpsT" num_tot_proteins="1" num_matched_ions="16" tot_num_ions="18" calc_neutral_pep_mass="1035.5237" massdiff="-0.368" num_tol_term="2" num_missed_cleavages="0" is_rejected="0"> <search_score name="hyperscore" value="332"/> <search_score name="nextscore" value="229"/> <search_score name="bscore" value="0"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score 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<parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.829"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.581396" all_ntt_prob="(0,0.0100365,0.581396)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01420.01420.2" start_scan="1420" end_scan="1420" precursor_neutral_mass="1027.0246" assumed_charge="2" index="579" retention_time_sec="0.0"> <search_result> <search_hit hit_rank="1" peptide="AGENVGVLLR" peptide_prev_aa="R" peptide_next_aa="G" protein="sp|P0CE47|EFTU1_ECOLI" protein_descr="Elongation factor Tu 1 OS=Escherichia coli (strain K12) GN=tufA" 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<search_score name="hyperscore" value="304"/> <search_score name="nextscore" value="204"/> <search_score name="bscore" value="1"/> <search_score name="yscore" value="1"/> <search_score name="cscore" value="0"/> <search_score name="zscore" value="0"/> <search_score name="ascore" value="0"/> <search_score name="xscore" value="0"/> <search_score name="expect" value="0.38"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.3854" all_ntt_prob="(0.0000,0.0046,0.3854)"> <search_score_summary> <parameter name="fval" value="2.9422"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.494"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0834093" all_ntt_prob="(0,0.000670176,0.0834093)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> 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value="555"/> <search_score name="hits_mean" value="0.212"/> <search_score name="hits_stdev" value="0.072"/> <search_score name="fval" value="0.358"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="121523207"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="9"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0953" all_ntt_prob="(0.0000,0.0953,0.0801)"> <search_score_summary> <parameter name="fval" value="0.3580"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.103"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.0150563" all_ntt_prob="(0,0.0150563,0.0124784)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01705.01705.3" start_scan="01705" end_scan="01705" precursor_neutral_mass="2046.4216" assumed_charge="3" index="391" retention_time_sec="2582.34"> <search_result> <search_hit hit_rank="1" peptide="FTAEGVQEIDYKDIATLK" peptide_prev_aa="R" peptide_next_aa="N" protein="tr|C3SFP7|C3SFP7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2040.0415" massdiff="+6.3801" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.756"/> <search_score name="delta" value="0.230"/> <search_score name="dot_bias" value="0.340"/> <search_score name="precursor_mz_diff" value="2.127"/> <search_score name="hits_num" value="570"/> <search_score 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<search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.645"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="79463266"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="6"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9527" all_ntt_prob="(0.0000,0.9527,0.9522)"> <search_score_summary> <parameter name="fval" value="0.6450"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.378"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.745087" all_ntt_prob="(0,0.745087,0.742984)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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<search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01081.01081.2" start_scan="01081" end_scan="01081" precursor_neutral_mass="1376.4788" assumed_charge="2" index="402" retention_time_sec="1869.33"> <search_result> <search_hit hit_rank="1" peptide="VAVFTQGANAEAAK" peptide_prev_aa="R" peptide_next_aa="A" protein="tr|C3SIC2|C3SIC2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1375.7095" massdiff="+0.7693" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.894"/> <search_score name="delta" value="0.468"/> <search_score name="dot_bias" value="0.164"/> <search_score name="precursor_mz_diff" value="0.385"/> <search_score name="hits_num" value="566"/> <search_score 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<search_score name="fval" value="0.614"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="267381044"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.2609" all_ntt_prob="(0.0000,0.2631,0.2609)"> <search_score_summary> <parameter name="fval" value="0.6140"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.523"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.315997" all_ntt_prob="(0,0.318462,0.315997)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="1.9897"/> <parameter 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9971"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01908.01908.4" start_scan="01908" end_scan="01908" precursor_neutral_mass="2986.6020" assumed_charge="4" index="546" retention_time_sec="2807.49"> <search_result> <search_hit hit_rank="1" peptide="LTNGFEVTSYIGGEGHNLQEHSVILIR" peptide_prev_aa="R" peptide_next_aa="G" protein="tr|Q8KPF1|Q8KPF1_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2982.5199" massdiff="+4.0821" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.591"/> <search_score name="delta" value="0.044"/> <search_score name="dot_bias" value="0.215"/> <search_score 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<interprophet_result probability="0.0609036" all_ntt_prob="(0,0.206168,0.0609036)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.499999"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01442.01442.3" start_scan="01442" end_scan="01442" precursor_neutral_mass="2240.0130" assumed_charge="3" index="547" retention_time_sec="2288.62"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+1.8704" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.916"/> <search_score name="delta" value="0.502"/> <search_score name="dot_bias" value="0.197"/> <search_score 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<interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.997"/> <parameter name="nrs" value="1.9994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01458.01458.3" start_scan="01458" end_scan="01458" precursor_neutral_mass="2240.5490" assumed_charge="3" index="548" retention_time_sec="2309.63"> <search_result> <search_hit hit_rank="1" peptide="AGDQIQSGVDAAIKPGNTLPMR" peptide_prev_aa="K" peptide_next_aa="N" protein="tr|C3SQV7|C3SQV7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2238.1426" massdiff="+2.4063" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.857"/> <search_score name="delta" value="0.433"/> <search_score name="dot_bias" value="0.190"/> <search_score name="precursor_mz_diff" value="0.802"/> <search_score name="hits_num" value="485"/> <search_score name="hits_mean" value="0.158"/> <search_score name="hits_stdev" value="0.076"/> <search_score name="fval" value="0.716"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.7160"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="2.406"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" 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value="497"/> <search_score name="hits_mean" value="0.177"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.548"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="10580834"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9995,0.9994)"> <search_score_summary> <parameter name="fval" value="0.5480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="3.433"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999544" all_ntt_prob="(0,0.99962,0.999544)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="2"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01537.01537.2" start_scan="01537" end_scan="01537" precursor_neutral_mass="1501.2563" assumed_charge="2" index="554" retention_time_sec="2395.86"> <search_result> <search_hit hit_rank="1" peptide="LIDQATAEIVETAK" peptide_prev_aa="R" peptide_next_aa="R" protein="tr|C3SQT7|C3SQT7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="1500.8035" massdiff="+0.4528" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.926"/> <search_score name="delta" value="0.576"/> <search_score name="dot_bias" value="0.148"/> <search_score name="precursor_mz_diff" value="0.226"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.149"/> <search_score name="hits_stdev" value="0.069"/> <search_score name="fval" value="0.804"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="159983550"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.8040"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.453"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.9998"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02422.02422.3" start_scan="02422" end_scan="02422" precursor_neutral_mass="2251.9079" assumed_charge="3" index="555" retention_time_sec="3416.70"> <search_result> <search_hit hit_rank="1" peptide="AQQIVDATDKLAVNIGLEILK" peptide_prev_aa="R" peptide_next_aa="L" protein="tr|C3TRN2|C3TRN2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2251.2787" massdiff="+0.6292" num_tol_term="2" num_missed_cleavages="1"> <search_score name="dot" value="0.522"/> <search_score name="delta" value="0.046"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="0.210"/> <search_score name="hits_num" value="505"/> <search_score name="hits_mean" value="0.216"/> <search_score name="hits_stdev" value="0.084"/> <search_score name="fval" value="0.348"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="25953137"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="65"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.0632" all_ntt_prob="(0.0000,0.0755,0.0632)"> <search_score_summary> <parameter name="fval" value="0.3480"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="0.629"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.00969525" all_ntt_prob="(0,0.0117123,0.00969525)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter 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value="0.076"/> <search_score name="fval" value="0.644"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="230604698"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="1.0000" all_ntt_prob="(0.0000,1.0000,1.0000)"> <search_score_summary> <parameter name="fval" value="0.6440"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.682"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.999999" all_ntt_prob="(0,1,1)"> <search_score_summary> <parameter name="nss" value="0.5465"/> <parameter name="nrs" value="2"/> <parameter 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value="0.733"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="2"/> <search_score name="lib_file_offset" value="187603060"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="100"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9770" all_ntt_prob="(0.0000,0.9773,0.9770)"> <search_score_summary> <parameter name="fval" value="0.7330"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="1.128"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997186" all_ntt_prob="(0,0.997223,0.997186)"> <search_score_summary> <parameter name="nss" value="0.9393"/> <parameter name="nrs" value="0.4546"/> <parameter name="nse" value="0"/> 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<search_score name="dot" value="0.607"/> <search_score name="delta" value="0.222"/> <search_score name="dot_bias" value="0.325"/> <search_score name="precursor_mz_diff" value="-0.034"/> <search_score name="hits_num" value="312"/> <search_score name="hits_mean" value="0.133"/> <search_score name="hits_stdev" value="0.066"/> <search_score name="fval" value="0.492"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="155907419"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9964" all_ntt_prob="(0.0000,0.9971,0.9964)"> <search_score_summary> <parameter name="fval" value="0.4920"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-0.103"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.987005" all_ntt_prob="(0,0.989513,0.987005)"> <search_score_summary> <parameter name="nss" value="0.1166"/> <parameter name="nrs" value="0.4995"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02611.02611.3" start_scan="02611" end_scan="02611" precursor_neutral_mass="2686.9996" assumed_charge="3" index="753" retention_time_sec="3647.92"> <search_result> <search_hit hit_rank="1" peptide="LGANPVPLQLAIGAEEHFTGVVDLVK" peptide_prev_aa="R" peptide_next_aa="M" protein="tr|C3SQS7|C3SQS7_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="2686.4693" massdiff="+0.5303" num_tol_term="2" num_missed_cleavages="0"> <search_score name="dot" value="0.632"/> <search_score name="delta" value="0.206"/> <search_score name="dot_bias" value="0.297"/> <search_score name="precursor_mz_diff" value="0.177"/> <search_score name="hits_num" value="312"/> <search_score name="hits_mean" value="0.154"/> <search_score name="hits_stdev" value="0.068"/> <search_score name="fval" value="0.510"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="3"/> <search_score name="lib_file_offset" value="155907419"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="99"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9995" all_ntt_prob="(0.0000,0.9996,0.9995)"> <search_score_summary> <parameter name="fval" value="0.5100"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="0.530"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997796" all_ntt_prob="(0,0.998236,0.997796)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4964"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01178.01178.1" start_scan="01178" end_scan="01178" precursor_neutral_mass="901.9363" assumed_charge="1" index="754" retention_time_sec="1990.81"> <search_result> <search_hit hit_rank="1" peptide="QGYPIGCK" peptide_prev_aa="R" peptide_next_aa="V" protein="tr|C3SR02|C3SR02_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="904.4113" massdiff="-2.4750" num_tol_term="2" num_missed_cleavages="0"> <modification_info modified_peptide="Q[111]GYPIGC[160]K"> <mod_aminoacid_mass position="1" mass="111.0320"/> <mod_aminoacid_mass position="7" mass="160.0307"/> </modification_info> <search_score name="dot" value="0.797"/> <search_score name="delta" value="0.403"/> <search_score name="dot_bias" value="0.215"/> <search_score name="precursor_mz_diff" value="-2.475"/> <search_score name="hits_num" value="347"/> <search_score name="hits_mean" value="0.107"/> <search_score name="hits_stdev" value="0.074"/> <search_score name="fval" value="0.681"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="1"/> <search_score name="lib_file_offset" value="211899992"/> <search_score name="lib_probability" value="0.9996"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="68"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9992" all_ntt_prob="(0.0000,0.9998,0.9992)"> <search_score_summary> <parameter name="fval" value="0.6810"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-2.475"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.996487" all_ntt_prob="(0,0.99912,0.996487)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4994"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01172.01172.1" start_scan="01172" end_scan="01172" precursor_neutral_mass="902.0069" assumed_charge="1" index="755" retention_time_sec="1983.52"> <search_result> <search_hit hit_rank="1" peptide="QGYPIGCK" peptide_prev_aa="R" peptide_next_aa="V" protein="tr|C3SR02|C3SR02_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="904.4113" massdiff="-2.4044" num_tol_term="2" num_missed_cleavages="0"> <modification_info modified_peptide="Q[111]GYPIGC[160]K"> <mod_aminoacid_mass position="1" mass="111.0320"/> <mod_aminoacid_mass position="7" mass="160.0307"/> </modification_info> <search_score name="dot" value="0.819"/> <search_score name="delta" value="0.450"/> <search_score name="dot_bias" value="0.208"/> <search_score name="precursor_mz_diff" value="-2.404"/> <search_score name="hits_num" value="346"/> <search_score name="hits_mean" value="0.098"/> <search_score name="hits_stdev" value="0.070"/> <search_score name="fval" value="0.711"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="1"/> <search_score name="lib_file_offset" value="211899992"/> <search_score name="lib_probability" value="0.9996"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="68"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9994" all_ntt_prob="(0.0000,0.9998,0.9994)"> <search_score_summary> <parameter name="fval" value="0.7110"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-2.404"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.997363" all_ntt_prob="(0,0.99912,0.997363)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0.4992"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.02329.02329.4" start_scan="02329" end_scan="02329" precursor_neutral_mass="3669.9772" assumed_charge="4" index="756" retention_time_sec="3291.28"> <search_result> <search_hit hit_rank="1" peptide="LAEVTGFPCVPAEDLIEATSDCGAYVMVHGALKR" peptide_prev_aa="K" peptide_next_aa="L" protein="tr|E2QK76|E2QK76_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="3675.7735" massdiff="-5.7962" num_tol_term="2" num_missed_cleavages="1"> <modification_info modified_peptide="LAEVTGFPC[160]VPAEDLIEATSDC[160]GAYVMVHGALKR"> <mod_aminoacid_mass position="9" mass="160.0307"/> <mod_aminoacid_mass position="22" mass="160.0307"/> </modification_info> <search_score name="dot" value="0.651"/> <search_score name="delta" value="0.293"/> <search_score name="dot_bias" value="0.169"/> <search_score name="precursor_mz_diff" value="-1.449"/> <search_score name="hits_num" value="312"/> <search_score name="hits_mean" value="0.157"/> <search_score name="hits_stdev" value="0.073"/> <search_score name="fval" value="0.571"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="4"/> <search_score name="lib_file_offset" value="148468978"/> <search_score name="lib_probability" value="1.0000"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="12"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,1.0000,0.9998)"> <search_score_summary> <parameter name="fval" value="0.5710"/> <parameter name="ntt" value="2"/> <parameter name="nmc" value="1"/> <parameter name="massd" value="-5.796"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998623" all_ntt_prob="(0,0.999993,0.998623)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> <spectrum_query spectrum="Ecoli.01904.01904.1" start_scan="01904" end_scan="01904" precursor_neutral_mass="928.7217" assumed_charge="1" index="757" retention_time_sec="2802.97"> <search_result> <search_hit hit_rank="1" peptide="PFVDGGVIK" peptide_prev_aa="V" peptide_next_aa="A" protein="tr|C3SSG2|C3SSG2_ECOLX" num_tot_proteins="1" calc_neutral_pep_mass="930.5174" massdiff="-1.7957" num_tol_term="1" num_missed_cleavages="0"> <search_score name="dot" value="0.834"/> <search_score name="delta" value="0.437"/> <search_score name="dot_bias" value="0.166"/> <search_score name="precursor_mz_diff" value="-1.796"/> <search_score name="hits_num" value="289"/> <search_score name="hits_mean" value="0.123"/> <search_score name="hits_stdev" value="0.077"/> <search_score name="fval" value="0.710"/> <search_score name="first_non_homolog" value="2"/> <search_score name="charge" value="1"/> <search_score name="lib_file_offset" value="204117518"/> <search_score name="lib_probability" value="0.9999"/> <search_score name="lib_status" value="Normal"/> <search_score name="lib_num_replicates" value="12"/> <search_score name="lib_remark" value="_NONE_"/> <analysis_result analysis="peptideprophet"> <peptideprophet_result probability="0.9998" all_ntt_prob="(0.0000,0.9998,0.9994)"> <search_score_summary> <parameter name="fval" value="0.7100"/> <parameter name="ntt" value="1"/> <parameter name="nmc" value="0"/> <parameter name="massd" value="-1.796"/> </search_score_summary> </peptideprophet_result> </analysis_result> <analysis_result analysis="interprophet"> <interprophet_result probability="0.998623" all_ntt_prob="(0,0.998623,0.99588)"> <search_score_summary> <parameter name="nss" value="0"/> <parameter name="nrs" value="0"/> <parameter name="nse" value="0"/> <parameter name="nsi" value="0"/> <parameter name="nsm" value="0"/> </search_score_summary> </interprophet_result> </analysis_result> </search_hit> </search_result> </spectrum_query> </msms_run_summary> </msms_pipeline_analysis> /default:msms_pipeline_analysis/default:msms_run_summary/default:spectrum_query/default:search_result/default:search_hit/@peptide default http://regis-web.systemsbiology.net/pepXML xsi http://www.w3.org/2001/XMLSchema-instance net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Loop net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokehistogram_bin_sizevalue00net.sf.taverna.t2.activitiesstringconstant-activity1.4net.sf.taverna.t2.activities.stringconstant.StringConstantActivity 20 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeget_propertiesseq0Gravy_score11ID11MW11pI11Prot_seq11net.sf.taverna.t2.activitiesbeanshell-activity1.4net.sf.taverna.t2.activities.beanshell.BeanshellActivity seq 0 text/plain java.lang.String true ID 1 1 Prot_seq 1 1 MW 1 1 Gravy_score 1 1 pI 1 1 workflow net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Parallelize 1 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.ErrorBouncenet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Failovernet.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Retry 1.0 1000 5000 0 net.sf.taverna.t2.coreworkflowmodel-impl1.4net.sf.taverna.t2.workflowmodel.processor.dispatch.layers.Invokeread_raw_filefileurlraw_inputextract_protein_IDs_rawxml_textread_raw_filefilecontentscombine_IDs_and_properties_rawprot_listextract_protein_IDs_rawnodelistcombine_IDs_and_properties_rawGravy_scoreget_propertiesGravy_scorecombine_IDs_and_properties_rawIDget_propertiesIDcombine_IDs_and_properties_rawMWget_propertiesMWcombine_IDs_and_properties_rawpIget_propertiespIcombine_IDs_and_properties_rawProt_seqget_propertiesProt_seqread_FASTA_filefileurlFASTA_filegenerate_figuresDataSetRawcombine_IDs_and_properties_rawout_rawgenerate_figuresDataSetSupcombine_IDs_and_properties_supernatantout_supgenerate_figuresDataSetPelcombine_IDs_and_properties_pelletout_pelgenerate_figuresPepsSupextract_peptide_sequences_supernatantnodelistgenerate_figuresPepsPelextract_peptide_sequences_pelletnodelistgenerate_figuresbinhistogram_bin_sizevaluegenerate_figuresPepsRawextract_peptide_sequences_rawnodelistread_pellet_filefileurlpellet_inputread_supernatant_filefileurlsupernatant_inputextract_protein_IDs_pelletxml_textread_pellet_filefilecontentsextract_protein_IDs_supernatantxml_textread_supernatant_filefilecontentscombine_IDs_and_properties_pelletprot_listextract_protein_IDs_pelletnodelistcombine_IDs_and_properties_pelletGravy_scoreget_propertiesGravy_scorecombine_IDs_and_properties_pelletIDget_propertiesIDcombine_IDs_and_properties_pelletMWget_propertiesMWcombine_IDs_and_properties_pelletpIget_propertiespIcombine_IDs_and_properties_pelletProt_seqget_propertiesProt_seqcombine_IDs_and_properties_supernatantprot_listextract_protein_IDs_supernatantnodelistcombine_IDs_and_properties_supernatantGravy_scoreget_propertiesGravy_scorecombine_IDs_and_properties_supernatantIDget_propertiesIDcombine_IDs_and_properties_supernatantMWget_propertiesMWcombine_IDs_and_properties_supernatantpIget_propertiespIcombine_IDs_and_properties_supernatantProt_seqget_propertiesProt_seqextract_peptide_sequences_rawxml_textread_raw_filefilecontentsextract_peptide_sequences_pelletxml_textread_pellet_filefilecontentsextract_peptide_sequences_supernatantxml_textread_supernatant_filefilecontentsget_propertiesseqread_FASTA_filefilecontentshistogramsgenerate_figuresout_name1Venn_diagramgenerate_figuresout 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