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. 2002 Sep;3(3):246-51.
doi: 10.1093/bib/3.3.246.

ProDom: automated clustering of homologous domains

Florence Servant  1 , Catherine Bru, Sébastien Carrère, Emmanuel Courcelle, Jérĵme Gouzy, David Peyruc, Daniel Kahn
Affiliations

ProDom: automated clustering of homologous domains

Florence Servant et al. Brief Bioinform. 2002 Sep.

Abstract

The ProDom database is a comprehensive set of protein domain families automatically generated from the SWISS-PROT and TrEMBL sequence databases. An associated database, ProDom-CG, has been derived as a restriction of ProDom to completely sequenced genomes. The ProDom construction method is based on iterative PSI-BLAST searches and multiple alignments are generated for each domain family. The ProDom web server provides the user with a set of tools to visualise multiple alignments, phylogenetic trees and domain architectures of proteins, as well as a BLAST-based server to analyse new sequences for homologous domains. The comprehensive nature of ProDom makes it particularly useful to help sustain the growth of InterPro.

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