UNIT 2.1 An Introduction to Recognizing Functional Domains

  1. Gary Stormo

Published Online: 1 AUG 2002

DOI: 10.1002/0471250953.bi0201s00

Current Protocols in Bioinformatics

Current Protocols in Bioinformatics

How to Cite

Stormo, G. 2002. An Introduction to Recognizing Functional Domains. Current Protocols in Bioinformatics. 2:2.1.

Author Information

  1. Washington University School of Medicine, St. Louis, Missouri

Publication History

  1. Published Online: 1 AUG 2002
  2. Published Print: JAN 2003

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This unit provides an overview of issues involved in domain recognition in protein and DNA sequences. It opens with a discussion of the two primary methods of domain representation, namely consensus sequences and alignment matrices (e.g., the log-odds matrix). The unit continues with a brief overview of some of the resources available for identifying functional domains in nucleotide sequences (e.g., TRANSFAC, TESS, and MEME). In addition, it reviews databases such as Pfam, and Blocks, which are available for protein analysis.