Simultaneous prediction of protein secondary structure and transmembrane spans.

ABSTRACT: Prediction of transmembrane spans and secondary structure from the protein sequence is generally the first step in the structural characterization of (membrane) proteins. Preference of a stretch of amino acids in a protein to form secondary structure and being placed in the membrane are correlated. Nevertheless, current methods predict either secondary structure or individual transmembrane states. We introduce a method that simultaneously predicts the secondary structure and transmembrane spans from the protein sequence. This approach not only eliminates the necessity to create a consensus prediction from possibly contradicting outputs of several predictors but bears the potential to predict conformational switches, i.e., sequence regions that have a high probability to change for example

SUBMITTER: Leman JK 

PROVIDER: S-EPMC5064873 | biostudies-literature | 2013 Jul

REPOSITORIES: biostudies-literature