Pfam 2.1 - Protein families database of alignments and HMMs
Pfam is a large collection of multiple sequence alignments
and hidden Markov models covering many common protein domains.
Pfam's alignments are of complete domains, not of motif
signatures. Pfam's development is tightly tied to the development of hidden
Markov model (HMM) profile methods of modeling protein multiple alignments.
Our goal is to enable rapid automatic annotation of common protein domains.
Pfam - consortium including researchers at the Sanger
Centre in Hinxton UK, the WashU Dept. of Genetics in St. Louis USA, and
Erik Sonnhammer, now at the NCBI.
Pfam is freely distributed under the terms of the
GNU Library General Public License.
Interactive WWW access to Pfam
You can search your favorite sequence against Pfam; access,
view, and download individual alignments from Pfam; or download HMMs that
you can use locally if you have installed HMMER
hidden Markov model software. Output pages are hyperlinked to other relevant
databases, including Swissprot, Genbank, PDB, PROSITE, and Medline.
Pfam. Search your sequence for matches to Pfam protein domain
Pfam. View or download one or more of the current alignments.
"SwissPfam". View the domain organisation of any Swissprot sequence
according to Pfam, based on the results of a precomputed Pfam HMM analysis.
Comments or questions? Send email to <firstname.lastname@example.org>.