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Comparative and Functional Genomics
Volume 2, Issue 5, Pages 314-318
http://dx.doi.org/10.1002/cfg.104

iSPOT: A Web Tool for the Analysis and Recognition of Protein Domain Specificity

1Department of Biology, University of Rome Tor Vergata, Rome, Italy
2Department of Biology, University of Rome Tor Vergata, Via della Ricerca Scientifica, Rome 00133, Italy

Received 28 June 2001; Accepted 27 July 2001

Copyright © 2001 Hindawi Publishing Corporation. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract

Methods that aim at predicting interaction partners are very likely to play an important role in the interpretation of genomic information. iSPOT (iSpecificity Prediction Of Target) is a web tool (accessible at http://cbm.bio.uniroma2.it/iSPOT) developed for the prediction of protein-protein interaction mediated by families of peptide recognition modules. iSPOT accesses a database of position specific residue-residue interaction frequencies for members of the SH3 and PDZ protein domain families. The software utilises this database to provide a score for any potential domain peptide interaction.

iSPOT: 1. evaluates the likelihood of the interaction between any of the peptides contained in an input protein and a list of domains of the two different families; 2. searches in the SWISS-PROT database for potential partners of a query domain; and 3. has access to a repository of all the domain/target peptide interaction data.