Detecting pore-lining regions in transmembrane protein sequences.

ABSTRACT:

Background

Alpha-helical transmembrane channel and transporter proteins play vital roles in a diverse range of essential biological processes and are crucial in facilitating the passage of ions and molecules across the lipid bilayer. However, the experimental difficulties associated with obtaining high quality crystals has led to their significant under-representation in structural databases. Computational methods that can identify structural features from sequence alone are therefore of high importance.

Results

We present a method capable of automatically identifying pore-lining regions in transmembrane proteins from sequence information alone, which can then be used to determine the pore stoichiometry. By labelling pore-lining residues in crystal structures using geometric

SUBMITTER: Nugent T 

PROVIDER: S-EPMC3441209 | biostudies-literature | 2012 Jul

REPOSITORIES: biostudies-literature