Protein-DNA docking with a coarse-grained force field.

ABSTRACT:

Background

Protein-DNA interactions are important for many cellular processes, however structural knowledge for a large fraction of known and putative complexes is still lacking. Computational docking methods aim at the prediction of complex architecture given detailed structures of its constituents. They are becoming an increasingly important tool in the field of macromolecular assemblies, complementing particularly demanding protein-nucleic acids X ray crystallography and providing means for the refinement and integration of low resolution data coming from rapidly advancing methods such as cryoelectron microscopy.

Results

We present a new coarse-grained force field suitable for protein-DNA docking. The force field is an extension of previously developed parameter sets for

SUBMITTER: Setny P 

PROVIDER: S-EPMC3522568 | biostudies-literature | 2012 Sep

REPOSITORIES: biostudies-literature