InterEvScore: a novel coarse-grained interface scoring function using a multi-body statistical potential coupled to evolution

Low-resolution structural modeling of protein interactome

(2013) Ilya A Vakser   CURRENT OPINION IN STRUCTURAL BIOLOGY

Structure-based prediction of protein–protein interactions on a genome-wide scale

(2012) Qiangfeng Cliff Zhang et al.   NATURE

Interactome3D: adding structural details to protein networks

(2012) Roberto Mosca et al.   NATURE METHODS

Templates are available to model nearly all complexes of structurally characterized proteins

(2012) P. J. Kundrotas et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Scoring protein interaction decoys using exposed residues (SPIDER): A novel multibody interaction scoring function based on frequent geometric patterns of interfacial residues

(2012) Raed Khashan et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Versatility and Invariance in the Evolution of Homologous Heteromeric Interfaces

(2012) Jessica Andreani et al.   PLoS Computational Biology

AN EVOLUTIONARY CONSERVATION-BASED METHOD FOR REFINING AND RERANKING PROTEIN COMPLEX STRUCTURES

(2012) BAHAR AKBAL-DELIBAS et al.   Journal of Bioinformatics and Computational Biology

Three-dimensional modeling of protein interactions and complexes is going ‘omics

(2011) Amelie Stein et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

InterEvol database: exploring the structure and evolution of protein complex interfaces

(2011) Guilhem Faure et al.   NUCLEIC ACIDS RESEARCH

Benchmarking and Analysis of Protein Docking Performance in Rosetta v3.2

(2011) Sidhartha Chaudhury et al.   PLoS One

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

(2011) Thom Vreven et al.   PROTEIN SCIENCE

Prescont: Predicting protein-protein interfaces utilizing four residue properties

(2011) Hermann Zellner et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Protein–protein docking tested in blind predictions: the CAPRI experiment

(2010) Joël Janin   Molecular BioSystems

Docking by structural similarity at protein-protein interfaces

(2010) Rohita Sinha et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

MDockPP: A hierarchical approach for protein-protein docking and its application to CAPRI rounds 15-19

(2010) Sheng-You Huang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Binding site prediction and improved scoring during flexible protein-protein docking with ATTRACT

(2010) Sébastien Fiorucci et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Docking and scoring protein interactions: CAPRI 2009

(2010) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein-protein docking benchmark version 4.0

(2010) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Convergence and combination of methods in protein–protein docking

(2009) Sandor Vajda et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Joint Evolutionary Trees: A Large-Scale Method To Predict Protein Interfaces Based on Sequence Sampling

(2009) Stefan Engelen et al.   PLoS Computational Biology

Accelerating and focusing protein-protein docking correlations using multi-dimensional rotational FFT generating functions

(2008) D. W. Ritchie et al.   BIOINFORMATICS

Assembly reflects evolution of protein complexes

(2008) Emmanuel D. Levy et al.   NATURE

Coevolution at protein complex interfaces can be detected by the complementarity trace with important impact for predictive docking

(2008) H. Madaoui et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Identification of direct residue contacts in protein-protein interaction by message passing

(2008) M. Weigt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA