Nucleic Acids Research, Vol 27, Issue 1 260-262, Copyright © 1999 by Oxford University Press
A Bateman, E Birney, R Durbin, SR Eddy, RD Finn and EL Sonnhammer
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.
ARTICLES
Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins
The Sanger Centre, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. agb@sanger.ac.uk
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