Structural alignment of arbitrary number of protein structures.
Created: 2008-09-02 14:59:23
This grid-executed Mustang application performs a structural alignment of protein sequences. The number of arguments is variable, in principle, but is shown here for three. The application is executed via the Taverna-ARC plugin on a machine of the NorduGrid. Although your machine can be a part of it, you may prefer to wait for a later version of that interface that does not require grid certificates.
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Workflow Components
Inputs (3)
Name |
Description |
1st structure PDB ID |
A PDB ID like '1va1'. The corresponding PDB entry is fetched from the database. |
2nd structure PDB ID |
A PDB ID like '1va2. The corresponding PDB entry is fetched from the database. |
3rd structure PDB ID |
A PDB ID like '1va3'. The corresponding PDB entry is fetched from the database. |
Processors (4)
Name |
Type |
Description |
Mustang_Structure_Alignment |
|
structural alignment of arbitrary number of protein structures |
2nd |
workflow |
|
3rd |
workflow |
|
1st |
workflow |
|
Outputs (7)
Name |
Description |
stdout |
Standard output of mustang. |
stderr |
Error messages are presented here. If there are any, then these should be forwarded to the author of this workflow. |
combined structures |
Overlay of all structurally aligned structures. |
structure_derived_sequence_alignment |
A protein sequence alignment that has its assignment primarily in the spacial vicinity of the corresponding amino acids in the protein structure alignment. |
1st_structure |
The first structure that was retrieved from PDB. |
2nd_structure |
The second structure that was retrieved from PDB. |
3rd_structure |
The third structure that was retrieved from PDB. |
Links (13)
Source |
Sink |
1st structure PDB ID |
1st:pdbID |
2nd structure PDB ID |
2nd:pdbID |
3rd structure PDB ID |
3rd:pdbID |
1st:pdbFlatFile |
Mustang_Structure_Alignment:pdb_structures |
2nd:pdbFlatFile |
Mustang_Structure_Alignment:pdb_structures |
3rd:pdbFlatFile |
Mustang_Structure_Alignment:pdb_structures |
1st:pdbFlatFile |
1st_structure |
2nd:pdbFlatFile |
2nd_structure |
3rd:pdbFlatFile |
3rd_structure |
Mustang_Structure_Alignment:STDERR |
stderr |
Mustang_Structure_Alignment:STDOUT |
stdout |
Mustang_Structure_Alignment:combined_structures |
combined structures |
Mustang_Structure_Alignment:structure_derived_alignment |
structure_derived_sequence_alignment |
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