Protein-protein docking by simulating the process of association based on predicted interface

摘要

BackgroundProtein-protein interactions are fundamental as many proteins mediate their biological function through these interactions. Many important applications follow directly from the identification of protein interface residues,such as drug design, protein mimetics engineering, elucidation of molecular pathways,and understanding of disease mechanisms. The identification of interface residues can also guide the docking process to build the structural model of protein-protein complexes.Data and MethodsInterlace predictionThere have been many efforts to predict protein-protein interaction binding sites based on the analysis of the protein surface properties. These efforts result in several webservers such as PPI Pred, PPISP, PINUP, Promate, and SPPIDER etc, to which one can submit a protein structure and is returned a predicted protein-protein interaction interface. We have developed a meta approach to improve the interface prediction based on the prediction results from these five servers [1].