PepPro: A Nonredundant Structure Data Set for Benchmarking Peptide–Protein Computational Docking

Protein–peptide docking: opportunities and challenges

(2018) Maciej Ciemny et al.   DRUG DISCOVERY TODAY

Hierarchical Flexible Peptide Docking by Conformer Generation and Ensemble Docking of Peptides

(2018) Pei Zhou et al.   Journal of Chemical Information and Modeling

HPEPDOCK: a web server for blind peptide–protein docking based on a hierarchical algorithm

(2018) Pei Zhou et al.   NUCLEIC ACIDS RESEARCH

MDockPeP: An ab-initio protein-peptide docking server

(2018) Xianjin Xu et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

High-resolution global peptide-protein docking using fragments-based PIPER-FlexPepDock

(2017) Nawsad Alam et al.   PLoS Computational Biology

LEADS-PEP: A Benchmark Data Set for Assessment of Peptide Docking Performance

(2016) Alexander Sebastian Hauser et al.   Journal of Chemical Information and Modeling

Fully Blind Docking at the Atomic Level for Protein-Peptide Complex Structure Prediction

(2016) Chengfei Yan et al.   STRUCTURE

Peptide therapeutics: current status and future directions

(2015) Keld Fosgerau et al.   DRUG DISCOVERY TODAY

Updates to the Integrated Protein–Protein Interaction Benchmarks: Docking Benchmark Version 5 and Affinity Benchmark Version 2

(2015) Thom Vreven et al.   JOURNAL OF MOLECULAR BIOLOGY

GalaxyPepDock: a protein–peptide docking tool based on interaction similarity and energy optimization

(2015) Hasup Lee et al.   NUCLEIC ACIDS RESEARCH

CABS-dock web server for the flexible docking of peptides to proteins without prior knowledge of the binding site

(2015) Mateusz Kurcinski et al.   NUCLEIC ACIDS RESEARCH

Fully Blind Peptide-Protein Docking with pepATTRACT

(2015) Christina E.M. Schindler et al.   STRUCTURE

AnchorDock: Blind and Flexible Anchor-Driven Peptide Docking

(2015) Avraham Ben-Shimon et al.   STRUCTURE

Short Linear Motifs: Ubiquitous and Functionally Diverse Protein Interaction Modules Directing Cell Regulation

(2014) Kim Van Roey et al.   CHEMICAL REVIEWS

Druggable protein–protein interactions – from hot spots to hot segments

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

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

Protein-Peptide Complex Prediction through Fragment Interaction Patterns

(2013) Erik Verschueren et al.   STRUCTURE

PepBind: A Comprehensive Database and Computational Tool for Analysis of Protein–peptide Interactions

(2013) Arindam Atanu Das et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

The Future of Peptide-based Drugs

(2012) David J. Craik et al.   Chemical Biology & Drug Design

A nonredundant structure dataset for benchmarking protein-RNA computational docking

(2012) Sheng-You Huang et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

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

(2011) Barak Raveh et al.   PLoS One

The Structural Basis of Peptide-Protein Binding Strategies

(2010) Nir London et al.   STRUCTURE

PepX: a structural database of non-redundant protein–peptide complexes

(2009) Peter Vanhee 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

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

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