Structure-based Markov random field model for representing evolutionary constraints on functional sites.

ABSTRACT:

Background

Elucidating the cooperative mechanism of interconnected residues is an important component toward understanding the biological function of a protein. Coevolution analysis has been developed to model the coevolutionary information reflecting structural and functional constraints. Recently, several methods have been developed based on a probabilistic graphical model called the Markov random field (MRF), which have led to significant improvements for coevolution analysis; however, thus far, the performance of these models has mainly been assessed by focusing on the aspect of protein structure.

Results

In this study, we built an MRF model whose graphical topology is determined by the residue proximity in the protein structure, and derived a novel positional coevolutio

SUBMITTER: Jeong CS 

PROVIDER: S-EPMC4765150 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature