Improving ranking of models for protein complexes with side chain modeling and atomic potentials

Integrating atom-based and residue-based scoring functions for protein-protein docking

(2011) Thom Vreven et al.   PROTEIN SCIENCE

H-bond network optimization in protein-protein complexes: Are all-atom force field scores enough?

(2011) Diego Masone et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Side-chain rotamer transitions at protein-protein interfaces

(2010) Mainak Guharoy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Achieving reliability and high accuracy in automated protein docking: Cluspro, PIPER, SDU, and stability analysis in CAPRI rounds 13-19

(2010) Dima Kozakov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Improved prediction of protein side-chain conformations with SCWRL4

(2009) Georgii G. Krivov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

PIE—Efficient filters and coarse grained potentials for unbound protein–protein docking

(2009) D. V. S. Ravikant et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

A combination of rescoring and refinement significantly improves protein docking performance

(2008) Brian Pierce et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein-protein docking benchmark version 3.0

(2008) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Refining near-native protein-protein docking decoys by local resampling and energy minimization

(2008) Shide Liang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein–protein interaction and quaternary structure

(2008) Joël Janin et al.   QUARTERLY REVIEWS OF BIOPHYSICS