A conservation and biophysics guided stochastic approach to refining docked multimeric proteins.

ABSTRACT:

Background

We introduce a protein docking refinement method that accepts complexes consisting of any number of monomeric units. The method uses a scoring function based on a tight coupling between evolutionary conservation, geometry and physico-chemical interactions. Understanding the role of protein complexes in the basic biology of organisms heavily relies on the detection of protein complexes and their structures. Different computational docking methods are developed for this purpose, however, these methods are often not accurate and their results need to be further refined to improve the geometry and the energy of the resulting complexes. Also, despite the fact that complexes in nature often have more than two monomers, most docking methods focus on dimers since the computation

SUBMITTER: Akbal-Delibas B 

PROVIDER: S-EPMC3952451 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature