iSPOT: A web tool for the analysis and recognition of protein domain specificity

Barbara Brannetti, Andreas Zanzoni, Luisa Montecchi-Palazzi, Gianni Cesareni, Manuela Helmer-Citterich

Research output: Contribution to journalArticlepeer-review

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.

Original languageEnglish
Pages (from-to)314-318
Number of pages5
JournalComparative and Functional Genomics
Volume2
Issue number5
DOIs
Publication statusPublished - 2001

Keywords

  • Computational methods
  • Homology modelling
  • Molecular recognition
  • Prediction of specificity
  • Protein domains
  • Web tools

ASJC Scopus subject areas

  • Applied Microbiology and Biotechnology
  • Biotechnology

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