Pfam 5.4

Pfam is a collection of protein family alignments which were constructed semi-automatically using hidden Markov models (HMMs).  Sequences that were not covered by Pfam were clustered and aligned automatically, and are released as Pfam-B.  Pfam families have permanent accession numbers and contain functional annotation and cross-references to other databases, while Pfam-B families are re-generated at each release and are unannotated. 
Query sequences can be searched against the Pfam library of profile hidden Markov models at the web sites below.

This release

Pfam 5.4 contains 2290 families and is based on SWISS_PROT 38 and SP-TREMBL 11 sequences. The current release contains 83 new families since the last release (5.3).

Availability

Pfam 5.4 is available on the web, offering access to multiple sequence alignments and profile HMM searches.

Information by: Pfam Team at Sanger

Resources and further information

• The Sanger Centre
  http://www.sanger.ac.uk/
• Pfam homepage (UK)
  http://www.sanger.ac.uk/Software/Pfam/
• Pfam flat file database ftp site
  ftp://ftp.sanger.ac.uk/pub/databases/Pfam/
• Washington University
  http://www.wustl.edu/
• Genetics Department
  http://www.genetics.wustl.edu/
• Pfam homepage (USA)
  http://pfam.wustl.edu/
• Pfam flat file database ftp site
  ftp://ftp.genetics.wustl.edu/pub/Pfam/
• HMMER2 software - Pfam HMM library is compatible with this sofwtare
  http://hmmer.wustl.edu/

Direct questions or comments to Bioinformer Editor. This page last modified Monday, 07 August, 2000.
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