UNIT 2.5 Identifying Protein Domains with the Pfam Database
Published Online: 1 MAY 2003
Copyright © 2003 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Finn, R., Griffiths-Jones, S. and Bateman, A. 2003. Identifying Protein Domains with the Pfam Database. Current Protocols in Bioinformatics. 1:2.5.1–2.5.19.
- Published Online: 1 MAY 2003
- Published Print: MAR 2003
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Pfam is a database of such protein domain families, with each family represented by multiple sequence alignments and profile hidden Markov models (HMMs). In addition, each family has associated annotation, literature references and links to other databases. The entries in Pfam are available via the worldwide web and in flatfile format. This unit contains detailed information on how to access and utilise the information present in the Pfam database, namely the families, multiple alignments and annotation. Details on running Pfam, both remotely and locally are presented.