PredβTM: A Novel β-Transmembrane Region Prediction Algorithm.

ABSTRACT: Predicting the transmembrane regions is an important aspect of understanding the structures and architecture of different β-barrel membrane proteins. Despite significant efforts, currently available β-transmembrane region predictors are still limited in terms of prediction accuracy, especially in precision. Here, we describe PredβTM, a transmembrane region prediction algorithm for β-barrel proteins. Using amino acid pair frequency information in known β-transmembrane protein sequences, we have trained a support vector machine classifier to predict β-transmembrane segments. Position-specific amino acid preference data is incorporated in the final prediction. The predictor does not incorporate evolutionary profile information explicitly, but is based on sequence patterns generated implicitly

SUBMITTER: Roy Choudhury A 

PROVIDER: S-EPMC4687927 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature