Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling.

ABSTRACT: The Joint Evolutionary Trees (JET) method detects protein interfaces, the core residues involved in the folding process, and residues susceptible to site-directed mutagenesis and relevant to molecular recognition. The approach, based on the Evolutionary Trace (ET) method, introduces a novel way to treat evolutionary information. Families of homologous sequences are analyzed through a Gibbs-like sampling of distance trees to reduce effects of erroneous multiple alignment and impacts of weakly homologous sequences on distance tree construction. The sampling method makes sequence analysis more sensitive to functional and structural importance of individual residues by avoiding effects of the overrepresentation of highly homologous sequences and improves computational efficiency. A carefully d

SUBMITTER: Engelen S 

PROVIDER: S-EPMC2613531 | biostudies-literature | 2009 Jan

REPOSITORIES: biostudies-literature