Template-based identification of protein-protein interfaces using eFindSite(PPI)

TitleTemplate-based identification of protein-protein interfaces using eFindSite(PPI)
Publication TypeJournal Article
Year of Publication2016
AuthorsMaheshwari S, Brylinski M
JournalMethods
Volume93
Pagination64-71
Date Published2016 Jan 15
ISSN1095-9130
Abstract

Protein-protein interactions orchestrate virtually all cellular processes, therefore, their exhaustive exploration is essential for the comprehensive understanding of cellular networks. A reliable identification of interfacial residues is vital not only to infer the function of individual proteins and their assembly into biological complexes, but also to elucidate the molecular and physicochemical basis of interactions between proteins. With the exponential growth of protein sequence data, computational approaches for detecting protein interface sites have drawn an increased interest. In this communication, we discuss the major features of eFindSite(PPI), a recently developed template-based method for interface residue prediction available at http://brylinski.cct.lsu.edu/efindsiteppi. We describe the requirements and installation procedures for the stand-alone version, and explain the content and format of output data. Furthermore, the functionality of the eFindSite(PPI) web application that is designed to provide a simple and convenient access for the scientific community is presented with illustrative examples. Finally, we discuss common problems encountered in predicting protein interfaces and set forth directions for the future development of eFindSite(PPI).

DOI10.1016/j.ymeth.2015.07.017
Alternate JournalMethods (San Diego, Calif.)
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