PEP-SiteFinder: a tool for the blind identification of peptide binding sites on protein surfaces

Peptide docking and structure-based characterization of peptide binding: from knowledge to know-how

(2013) Nir London et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

(2013) Mikael Trellet et al.   PLoS One

Structural mechanisms of PriA-mediated DNA replication restart

(2013) B. Bhattacharyya et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Detection of peptide-binding sites on protein surfaces: The first step toward the modeling and targeting of peptide-mediated interactions

(2013) Assaf Lavi 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

Protein-Peptide Complex Prediction through Fragment Interaction Patterns

(2013) Erik Verschueren et al.   STRUCTURE

PEP-FOLD: an updated de novo structure prediction server for both linear and disulfide bonded cyclic peptides

(2012) P. Thevenet et al.   NUCLEIC ACIDS RESEARCH

PepSite: prediction of peptide-binding sites from protein surfaces

(2012) L. G. Trabuco et al.   NUCLEIC ACIDS RESEARCH

PepCrawler: a fast RRT-based algorithm for high-resolution refinement and binding affinity estimation of peptide inhibitors

(2011) E. Donsky et al.   BIOINFORMATICS

De novo designed peptides for biological applications

(2011) Aimee L. Boyle et al.   CHEMICAL SOCIETY REVIEWS

Peptides: Important tools for the treatment of central nervous system disorders

(2011) Luciana Malavolta et al.   NEUROPEPTIDES

Rosetta FlexPepDock web server—high resolution modeling of peptide–protein interactions

(2011) Nir London et al.   NUCLEIC ACIDS RESEARCH

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

(2011) Barak Raveh et al.   PLoS One

Structural and Dynamic Determinants of Protein-Peptide Recognition

(2011) Onur Dagliyan et al.   STRUCTURE

Computational design of peptide ligands

(2011) Peter Vanhee et al.   TRENDS IN BIOTECHNOLOGY

Venomics: a new paradigm for natural products-based drug discovery

(2010) Irina Vetter et al.   AMINO ACIDS

Jmol– a paradigm shift in crystallographic visualization

(2010) Robert M. Hanson   JOURNAL OF APPLIED CRYSTALLOGRAPHY

BriX: a database of protein building blocks for structural analysis, modeling and design

(2010) Peter Vanhee et al.   NUCLEIC ACIDS RESEARCH

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

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

The Structural Basis of Peptide-Protein Binding Strategies

(2010) Nir London et al.   STRUCTURE

Fpocket: An open source platform for ligand pocket detection

(2009) Vincent Le Guilloux et al.   BMC BIOINFORMATICS

Synthetic therapeutic peptides: science and market

(2009) Patrick Vlieghe et al.   DRUG DISCOVERY TODAY

PEP-FOLD: an online resource for de novo peptide structure prediction

(2009) J. Maupetit et al.   NUCLEIC ACIDS RESEARCH

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

(2009) Iris Antes   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

PTools: an opensource molecular docking library

(2009) Adrien Saladin et al.   BMC STRUCTURAL BIOLOGY

Accurate Prediction of Peptide Binding Sites on Protein Surfaces

(2009) Evangelia Petsalaki et al.   PLoS Computational Biology

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

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

The design, structures and therapeutic potential of protein epitope mimetics

(2008) John A. Robinson et al.   DRUG DISCOVERY TODAY

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