Identification of direct residue contacts in protein-protein interaction by message passing.

ABSTRACT: Understanding the molecular determinants of specificity in protein-protein interaction is an outstanding challenge of postgenome biology. The availability of large protein databases generated from sequences of hundreds of bacterial genomes enables various statistical approaches to this problem. In this context covariance-based methods have been used to identify correlation between amino acid positions in interacting proteins. However, these methods have an important shortcoming, in that they cannot distinguish between directly and indirectly correlated residues. We developed a method that combines covariance analysis with global inference analysis, adopted from use in statistical physics. Applied to a set of >2,500 representatives of the bacterial two-component signal transduction system,

SUBMITTER: Weigt M 

PROVIDER: S-EPMC2629192 | biostudies-literature | 2009 Jan

REPOSITORIES: biostudies-literature