Modeling complexes of modeled proteins

Prediction of homoprotein and heteroprotein complexes by protein docking and template-based modeling: A CASP-CAPRI experiment

(2016) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Template-based prediction of protein function

(2015) Donald Petrey et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Protein models docking benchmark 2

(2015) Ivan Anishchenko et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Structural templates for comparative protein docking

(2015) Ivan Anishchenko et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Predicted binding site information improves model ranking in protein docking using experimental and computer-generated target structures

(2015) Surabhi Maheshwari et al.   BMC STRUCTURAL BIOLOGY

Text Mining for Protein Docking

(2015) Varsha D. Badal et al.   PLoS Computational Biology

Structural Bioinformatics of the Interactome

(2014) Donald Petrey et al.   Annual Review of Biophysics

Protein-Protein Docking: From Interaction to Interactome

(2014) Ilya A. Vakser   BIOPHYSICAL JOURNAL

Assessing the Applicability of Template-Based Protein Docking in the Twilight Zone

(2014) Jacopo Negroni et al.   STRUCTURE

Robust and accurate prediction of residue–residue interactions across protein interfaces using evolutionary information

(2014) Sergey Ovchinnikov et al.   eLife

Encounter complexes and dimensionality reduction in protein–protein association

(2014) Dima Kozakov et al.   eLife

Sequence co-evolution gives 3D contacts and structures of protein complexes

(2014) Thomas A Hopf et al.   eLife

Modeling protein association mechanisms and kinetics

(2013) Huan-Xiang Zhou et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Low-resolution structural modeling of protein interactome

(2013) Ilya A Vakser   CURRENT OPINION IN STRUCTURAL BIOLOGY

Towards a detailed atlas of protein–protein interactions

(2013) Roberto Mosca et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Are predicted protein structures of any value for binding site prediction and virtual ligand screening?

(2013) Jeffrey Skolnick et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Protein-protein alternative binding modes do not overlap

(2013) Petras J. Kundrotas et al.   PROTEIN SCIENCE

Protein models: The Grand Challenge of protein docking

(2013) Ivan Anishchenko et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Defining the limits of homology modeling in information-driven protein docking

(2013) J. P. G. L. M. Rodrigues et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Docking, scoring, and affinity prediction in CAPRI

(2013) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Critical assessment of methods of protein structure prediction (CASP) - round x

(2013) John Moult et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

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

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

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

Quantitative use of chemical shifts for the modeling of protein complexes

(2011) Dirk Stratmann et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

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

(2010) Ambrish Roy et al.   Nature Protocols

Docking by structural similarity at protein-protein interfaces

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

Protein-protein docking benchmark version 4.0

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

Accuracy of Protein-Protein Binding Sites in High-Throughput Template-Based Modeling

(2010) Petras J. Kundrotas et al.   PLoS Computational Biology

Nature of the protein universe

(2009) M. Levitt   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

I-TASSER server for protein 3D structure prediction

(2008) Yang Zhang   BMC BIOINFORMATICS

Principles of flexible protein-protein docking

(2008) Nelly Andrusier et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS