Predicting protein-protein binding sites in membrane proteins.

ABSTRACT:

Background

Many integral membrane proteins, like their non-membrane counterparts, form either transient or permanent multi-subunit complexes in order to carry out their biochemical function. Computational methods that provide structural details of these interactions are needed since, despite their importance, relatively few structures of membrane protein complexes are available.

Results

We present a method for predicting which residues are in protein-protein binding sites within the transmembrane regions of membrane proteins. The method uses a Random Forest classifier trained on residue type distributions and evolutionary conservation for individual surface residues, followed by spatial averaging of the residue scores. The prediction accuracy achieved for membrane proteins i

SUBMITTER: Bordner AJ 

PROVIDER: S-EPMC2761413 | biostudies-literature | 2009 Sep

REPOSITORIES: biostudies-literature