PAIRpred: Partner-specific prediction of interacting residues from sequence and structure

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

Challenges for the prediction of macromolecular interactions

(2011) Mark N Wass et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

SPINE X: Improving protein secondary structure prediction by multistep learning coupled with prediction of solvent accessible surface area and backbone torsion angles

(2011) Eshel Faraggi et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

PredUs: a web server for predicting protein interfaces using structural neighbors

(2011) Q. C. Zhang et al.   NUCLEIC ACIDS RESEARCH

Accelerating Protein Docking in ZDOCK Using an Advanced 3D Convolution Library

(2011) Brian G. Pierce et al.   PLoS One

Protein 3D Structure Computed from Evolutionary Sequence Variation

(2011) Debora S. Marks et al.   PLoS One

Partner-Aware Prediction of Interacting Residues in Protein-Protein Complexes from Sequence Data

(2011) Shandar Ahmad et al.   PLoS One

Structural basis for the sequence-specific recognition of human ISG15 by the NS1 protein of influenza B virus

(2011) R. Guan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Relative Solvent Accessible Surface Area Predicts Protein Conformational Changes upon Binding

(2011) Joseph A. Marsh et al.   STRUCTURE

In Silico Prediction of Binding Sites on Proteins

(2010) Simon Leis et al.   CURRENT MEDICINAL CHEMISTRY

I-TASSER: a unified platform for automated protein structure and function prediction

(2010) Ambrish Roy et al.   Nature Protocols

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

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

Progress and challenges in predicting protein-protein interaction sites

(2009) I. Ezkurdia et al.   BRIEFINGS IN BIOINFORMATICS

Principles of Protein−Protein Interactions: What are the Preferred Ways For Proteins To Interact?

(2008) Ozlem Keskin et al.   CHEMICAL REVIEWS

Using protein binding site prediction to improve protein docking

(2008) Bingding Huang et al.   GENE

Protein-protein docking benchmark version 3.0

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

PSAIA - Protein Structure and Interaction Analyzer

(2008) Josip Mihel et al.   BMC STRUCTURAL BIOLOGY

Support Vector Machines and Kernels for Computational Biology

(2008) Asa Ben-Hur et al.   PLoS Computational Biology