Email updates

Keep up to date with the latest news and content from Genome Biology and BioMed Central.

Open Access Method

Determinants of protein function revealed by combinatorial entropy optimization

Boris Reva*, Yevgeniy Antipin and Chris Sander

Author Affiliations

Computational Biology Center, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY 10065, USA

For all author emails, please log on.

Genome Biology 2007, 8:R232  doi:10.1186/gb-2007-8-11-r232

Published: 1 November 2007

Abstract

We use a new algorithm (combinatorial entropy optimization [CEO]) to identify specificity residues and functional subfamilies in sets of proteins related by evolution. Specificity residues are conserved within a subfamily but differ between subfamilies, and they typically encode functional diversity. We obtain good agreement between predicted specificity residues and experimentally known functional residues in protein interfaces. Such predicted functional determinants are useful for interpreting the functional consequences of mutations in natural evolution and disease.