Identification of residue pairing in interacting β-strands from a predicted residue contact map.

ABSTRACT:

Background

Despite the rapid progress of protein residue contact prediction, predicted residue contact maps frequently contain many errors. However, information of residue pairing in β strands could be extracted from a noisy contact map, due to the presence of characteristic contact patterns in β-β interactions. This information may benefit the tertiary structure prediction of mainly β proteins. In this work, we propose a novel ridge-detection-based β-β contact predictor to identify residue pairing in β strands from any predicted residue contact map.

Results

Our algorithm RDb₂C adopts ridge detection, a well-developed technique in computer image processing, to capture consecutive residue contacts, and then utilizes a novel multi-stage random forest framework to in

SUBMITTER: Mao W 

PROVIDER: S-EPMC5907701 | biostudies-literature | 2018 Apr

REPOSITORIES: biostudies-literature