TIGRFAMs: a protein family resource for the functional identification of proteins

TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members o...

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Bibliographic Details
Published in:Nucleic acids research Vol. 29; no. 1; pp. 41 - 43
Main Author: Haft, D. H.
Format: Journal Article
Language:English
Published: England Oxford Publishing Limited (England) 01.01.2001
Oxford University Press
Subjects:
Databases, Factual
Internet
Markov chains
Phylogeny
Proteins
Proteins - genetics
Sequence Alignment
TIGRFAM
ISSN:1362-4962, 0305-1048, 1362-4962
Online Access:Get full text
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Summary:TIGRFAMs is a collection of protein families featuring curated multiple sequence alignments, hidden Markov models and associated information designed to support the automated functional identification of proteins by sequence homology. We introduce the term 'equivalog' to describe members of a set of homologous proteins that are conserved with respect to function since their last common ancestor. Related proteins are grouped into equivalog families where possible, and otherwise into protein families with other hierarchically defined homology types. TIGRFAMs currently contains over 800 protein families, available for searching or downloading at www.tigr.org/TIGRFAMs. Classification by equivalog family, where achievable, complements classification by orthology, superfamily, domain or motif. It provides the information best suited for automatic assignment of specific functions to proteins from large-scale genome sequencing projects.
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To whom correspondence should be addressed. Tel: +1 301 838 0200; +1 301 838 0209; Email: owhite@tigr.org
ISSN:1362-4962
0305-1048
1362-4962
DOI:10.1093/nar/29.1.41