Identification of specificity determining residues in peptide recognition domains using an information theoretic approach applied to large-scale binding maps.

ABSTRACT:

Background

Peptide Recognition Domains (PRDs) are commonly found in signaling proteins. They mediate protein-protein interactions by recognizing and binding short motifs in their ligands. Although a great deal is known about PRDs and their interactions, prediction of PRD specificities remains largely an unsolved problem.

Results

We present a novel approach to identifying these Specificity Determining Residues (SDRs). Our algorithm generalizes earlier information theoretic approaches to coevolution analysis, to become applicable to this problem. It leverages the growing wealth of binding data between PRDs and large numbers of random peptides, and searches for PRD residues that exhibit strong evolutionary covariation with some positions of the statistical profiles of bound pep

SUBMITTER: Yip KY 

PROVIDER: S-EPMC3224579 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature