Pfam 5.0 release

Sean Eddy eddy at
Fri Jan 21 16:10:09 EST 2000

                ANNOUNCING PFAM RELEASE 5.0

Pfam is a collection of protein domain family alignments which were
constructed semi-automatically using profile hidden Markov models.
Pfam families contain functional annotation and cross-references to
other databases.  Query sequences can be searched against the Pfam
library of profile hidden Markov models at the web sites below.

Pfam 5.0 contains 2008 families.  64% of proteins in SWISSPROT 38
and TrEMBL 11 have at least one match to a Pfam family.

For interactive access and searching see URLs


The release is also available in flat file by anonymous ftp:


The Pfam HMM library is compatible with HMMER2 software, available

and also the Wise2 software, available from


The Pfam consortium
- Sean Eddy
- Dept. of Genetics, Washington University in St. Louis

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