UNIT 2.5 Identifying Protein Domains with the Pfam Database
Published Online: 1 SEP 2008
Copyright © 2008 by John Wiley & Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Coggill, P., Finn, R. D. and Bateman, A. 2008. Identifying Protein Domains with the Pfam Database. Current Protocols in Bioinformatics. 23:2.5:2.5.1–2.5.17.
- Published Online: 1 SEP 2008
- Published Print: SEP 2008
Pfam is a database of 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 World Wide Web and in flatfile format. This unit contains detailed information on how to access and utilize the information present in the Pfam database, namely the families, multiple alignments, and annotation. Details on running Pfam, both remotely and locally are presented. Curr. Protoc. Bioinform. 23:2.5.1-2.5.17. © 2008 by John Wiley & Sons, Inc.
- protein domain;
- protein family;
- sequence alignment;
- sequence analysis