Docking protein domains in contact space.

ABSTRACT:

Background

Many biological processes involve the physical interaction between protein domains. Understanding these functional associations requires knowledge of the molecular structure. Experimental investigations though present considerable difficulties and there is therefore a need for accurate and reliable computational methods. In this paper we present a novel method that seeks to dock protein domains using a contact map representation. Rather than providing a full three dimensional model of the complex, the method predicts contacting residues across the interface. We use a scoring function that combines structural, physicochemical and evolutionary information, where each potential residue contact is assigned a value according to the scoring function and the hypothesis is that

SUBMITTER: Lise S 

PROVIDER: S-EPMC1559650 | biostudies-literature | 2006 Jun

REPOSITORIES: biostudies-literature