WSsas - Web Service for the SAS tool
Description
 SAS is a tool for applying structural information to a given protein sequence. It uses FASTA to scan a given protein sequence against all the proteins of known 3D structure in the Protein Data Bank and provides functional residue annotation based on data from the Catalytic Site Atlas and PDBsum.
The web service is aimed to facilitate the use of the SAS tool when having a huge number of queries. Currently, the web service provides annotation for binding sites (to ligand, metal or nucleic acid), catalytic residues and amino acids related to protein-protein interactions.
Example
Input sequence in FASTA format
Output in XML format
Client
Instructions for using the Perl client to access the service.
Install SOAP::Lite
To run the Perl client you need to install SOAP::Lite version 0.60.
Download the client
http://www.ebi.ac.uk/thornton-srv/databases/WSsas/sasClient.pl
Usage
perl sasClient.pl -h # Help describing options
perl sasClient.pl [options] seqfile.fasta # Run for sequence in FASTA format
Options
-h, --help : prints this help text
-s, --stringency: The presence of identical atoms in the query and
the hits is required for the prediction [Default
= FALSE]
-v, --verbosity : Output contains information about the atomic
contacts [Default = FALSE]
-E, --evalue : E-value from the FASTA search used for the
functional annotation [Default = 0.001]
-I, --identity : Identity percentage between aligned stretches
used for the functional annotation [Default = 30]
-O, --outfile : Output file. If no file is defined, results are
printed on the screen
-X, --overlap : Overlap (number of residues) between query and
hit sequences used for the functional annotation
[Default = 80]
XSD
XSD schema describing the output results.
http://www.ebi.ac.uk/thornton-srv/databases/WSsas/Schema/WSsas.xsd
WSDL
http://www.ebi.ac.uk/thornton-srv/databases/WSsas/WSsas.wsdl
Last updated: 20 January 2009
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