High-Resolution Identification of Specificity Determining Positions in the LacI Protein Family Using Ensembles of Sub-Sampled Alignments.

ABSTRACT: Since the advent of large-scale genomic sequencing, and the consequent availability of large numbers of homologous protein sequences, there has been burgeoning development of methods for extracting functional information from multiple sequence alignments (MSAs). One type of analysis seeks to identify specificity determining positions (SDPs) based on the assumption that such positions are highly conserved within groups of sequences sharing functional specificity, but conserved to different amino acids in different specificity groups. This unsupervised approach to utilizing evolutionary information may elucidate mechanisms of specificity in protein-protein interactions, catalytic activity of enzymes, sensitivity to allosteric regulation, and other types of protein functionality. We present a

SUBMITTER: Sloutsky R 

PROVIDER: S-EPMC5040260 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature