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Oxford University Press, Nucleic Acids Research, 1(27), p. 260-262, 1999

DOI: 10.1093/nar/27.1.260

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Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.

Journal article published in 1999 by Alex Bateman ORCID, Ewan Birney ORCID, Richard Durbin ORCID, Sean R. Eddy ORCID, Robert D. Finn, E. L. L. Sonnhammer, L. L. Erik
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Pfam is a collection of multiple alignments and profile hidden Markov models of protein domain families. Release 3.1 is a major update of the Pfam database and contains 1313 families which are available on the World Wide Web in Europe at http://www.sanger.ac.uk/Software/Pfam/ and http://www.cgr.ki.se/Pfam/, and in the US at http://pfam.wustl.edu/. Over 54% of proteins in SWISS-PROT-35 and SP-TrEMBL-5 match a Pfam family. The primary changes of Pfam since release 2.1 are that we now use the more advanced version 2 of the HMMER software, which is more sensitive and provides expectation values for matches, and that it now includes proteins from both SP-TrEMBL and SWISS-PROT.