FiberDock: a web server for flexible induced-fit backbone refinement in molecular docking.

ABSTRACT: Protein-protein docking algorithms aim to predict the structure of a complex given the atomic structures of the proteins that assemble it. The docking procedure usually consists of two main steps: docking candidate generation and their refinement. The refinement stage aims to improve the accuracy of the candidate solutions and to identify near-native solutions among them. During protein-protein interaction, both side chains and backbone change their conformation. Refinement methods should model these conformational changes in order to obtain a more accurate model of the complex. Handling protein backbone flexibility is a major challenge for docking methodologies, since backbone flexibility adds a huge number of degrees of freedom to the search space. FiberDock is the first docking refineme

SUBMITTER: Mashiach E 

PROVIDER: S-EPMC2896170 | biostudies-literature | 2010 Jul

REPOSITORIES: biostudies-literature