PaFlexPepDock: Parallel Ab-Initio Docking of Peptides onto Their Receptors with Full Flexibility Based on Rosetta

Protein-ligand binding region prediction (PLB-SAVE) based on geometric features and CUDA acceleration

(2013) Ying-Tsang Lo et al.   BMC BIOINFORMATICS

A Unified Conformational Selection and Induced Fit Approach to Protein-Peptide Docking

(2013) Mikael Trellet et al.   PLoS One

Recent work in the development and application of protein–peptide docking

(2012) Joseph Audie et al.   Future Medicinal Chemistry

Peptides for cell-selective drug delivery

(2012) Nina Svensen et al.   TRENDS IN PHARMACOLOGICAL SCIENCES

A De Novo Protein Binding Pair By Computational Design and Directed Evolution

(2011) John Karanicolas et al.   MOLECULAR CELL

Rosetta FlexPepDock ab-initio: Simultaneous Folding, Docking and Refinement of Peptides onto Their Receptors

(2011) Barak Raveh et al.   PLoS One

Structure-based prediction of protein-peptide specificity in rosetta

(2010) Christopher A. King et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

NMR Structure Determination for Larger Proteins Using Backbone-Only Data

(2010) S. Raman et al.   SCIENCE

The Structural Basis of Peptide-Protein Binding Strategies

(2010) Nir London et al.   STRUCTURE

Peptidic modulators of protein-protein interactions: Progress and challenges in computational design

(2009) Mor Rubinstein et al.   BIOPOLYMERS

Sub-angstrom accuracy in protein loop reconstruction by robotics-inspired conformational sampling

(2009) Daniel J Mandell et al.   NATURE METHODS

Blind docking of pharmaceutically relevant compounds using RosettaLigand

(2009) Ian W. Davis et al.   PROTEIN SCIENCE

DynaDock: A new molecular dynamics-based algorithm for protein-peptide docking including receptor flexibility

(2009) Iris Antes   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Accurate Prediction of Peptide Binding Sites on Protein Surfaces

(2009) Evangelia Petsalaki et al.   PLoS Computational Biology

Macromolecular Modeling with Rosetta

(2008) Rhiju Das et al.   Annual Review of Biochemistry

Peptide-mediated interactions in biological systems: new discoveries and applications

(2008) Evangelia Petsalaki et al.   CURRENT OPINION IN BIOTECHNOLOGY

A new peptide docking strategy using a mean field technique with mutually orthogonal Latin square sampling

(2008) P. Arun Prasad et al.   JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN

Efficient docking of peptides to proteins without prior knowledge of the binding site

(2002) Csaba Hetényi et al.   PROTEIN SCIENCE