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PMID: 11752314 Published · ppublish English Journal Article

The Pfam protein families database.

Nucleic acids research ·Vol. 30 ·No. 1 ·2002-01-01 ·Pages 276-80

Bateman A, Birney E, Cerruti L, Durbin R, Etwiller L, Eddy SR, Griffiths-Jones S, Howe KL, Marshall M, Sonnhammer EL

Abstract

Pfam is a large collection of protein multiple sequence alignments and profile hidden Markov models. Pfam is available on the World Wide Web in the UK at http://www.sanger.ac.uk/Software/Pfam/, in Sweden at http://www.cgb.ki.se/Pfam/, in France at http://pfam.jouy.inra.fr/ and in the US at http://pfam.wustl.edu/. The latest version (6.6) of Pfam contains 3071 families, which match 69% of proteins in SWISS-PROT 39 and TrEMBL 14. Structural data, where available, have been utilised to ensure that Pfam families correspond with structural domains, and to improve domain-based annotation. Predictions of non-domain regions are now also included. In addition to secondary structure, Pfam multiple sequence alignments now contain active site residue mark-up. New search tools, including taxonomy search and domain query, greatly add to the functionality and usability of the Pfam resource.

MeSH Terms
Animals Binding Sites Computer Graphics Databases, Protein Evolution, Molecular Genome Humans Information Storage and Retrieval Internet Macromolecular Substances Markov Chains Phylogeny Protein Structure, Secondary Protein Structure, Tertiary Proteins/chemistry,genetics,physiology Sequence Alignment
Chemicals
Macromolecular Substances Proteins
Authors & Affiliations
10 authors, click to expand affiliations / ORCID
Bateman Alex
Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. [email protected]
Birney Ewan
Cerruti Lorenzo
Durbin Richard
Etwiller Laurence
Eddy Sean R
Griffiths-Jones Sam
Howe Kevin L
Marshall Mhairi
Sonnhammer Erik L L
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/30.1.276
Email
[email protected]
Published
2002-01-01
Pages
276-80
Language
English
Region
England
NLM ID
0411011
PMCID
PMC99071
Subset
IM
Grants
Medical Research Council · G0100305 · United Kingdom
External Links
PubMed source DOI: 10.1093/nar/30.1.276 PMC Full Text View journal details
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