Journal
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
Volume 69, Issue 4, Pages 832-838Publisher
WILEY
DOI: 10.1002/prot.21737
Keywords
protein-protein interaction; 3D structure; shape complementarity; prediction of protein complex; computational biology; CAPRI
Categories
Ask authors/readers for more resources
We have developed a new method to predict protein-protein complexes based on the shape complementarity of the molecular surfaces, along with sequence conservation obtained by evolutionary trace (ET) analysis. The docking is achieved by optimization of an object function that evaluates the degree of shape complementarity weighted by the conservation of the interacting residues. The optimization is carried out using a genetic algorithm in combination with Monte Carlo sampling. We applied this method to CAPRI targets and evaluated the performance systematically. Consequently, our method could achieve native-like predictions in several cases. In addition, we have analyzed the feasibility of the ET method for docking Simulations, and found that the conservation information was useful only in a limited category of proteins (signal related proteins and enzymes).
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available