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

Journal of molecular biology, 2015-09, Vol.427 (19), p.3031-3041

2015

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PPInterface: A Comprehensive Dataset of 3D Protein-Protein Interface Structures

Journal of molecular biology, 2024-09, Vol.436 (17), p.168686, Article 168686

2024

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Flexibility and small pockets at protein–protein interfaces: New insights into druggability

Progress in biophysics and molecular biology, 2015-10, Vol.119 (1), p.2-9

2015

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Probing theα-Helical Structural Stability of Stapled p53 Peptides: Molecular Dynamics Simulations and Analysis

Chemical biology & drug design, 2010-04, Vol.75 (4), p.348-359

2010

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Hot spots in protein–protein interfaces: Towards drug discovery

Progress in biophysics and molecular biology, 2014-11, Vol.116 (2-3), p.165-173

2014

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Exploring the potential of 3D Zernike descriptors and SVM for protein-protein interface prediction

BMC bioinformatics, 2018-02, Vol.19 (1), p.35-35, Article 35

2018

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KFC2: A knowledge-based hot spot prediction method based on interface solvation, atomic density, and plasticity features

Proteins, structure, function, and bioinformatics, 2011-09, Vol.79 (9), p.2671-2683

2011

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Computational alanine scanning mutagenesis-An improved methodological approach

Journal of computational chemistry, 2007-02, Vol.28 (3), p.644-654

2007

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Marker residue types at the structural regions of transmembrane alpha‐helical and beta‐barrel interfaces

Proteins, structure, function, and bioinformatics, 2021-09, Vol.89 (9), p.1145-1157

Beytur, Sercan

2021

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Prediction of quaternary structure by analysis of hot spot residues in protein‐protein interfaces: the case of anthranilate phosphoribosyltransferases

Proteins, structure, function, and bioinformatics, 2019-10, Vol.87 (10), p.815-825

2019

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Great interactions: How binding incorrect partners can teach us about protein recognition and function

Proteins, structure, function, and bioinformatics, 2016-10, Vol.84 (10), p.1408-1421

2016

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Hidden partners: Using cross‐docking calculations to predict binding sites for proteins with multiple interactions

Proteins, structure, function, and bioinformatics, 2018-07, Vol.86 (7), p.723-737

2018

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The Relationship between the Flexibility of Proteins and their Conformational States on Forming Protein–Protein Complexes with an Application to Protein–Protein Docking

Journal of molecular biology, 2005-04, Vol.347 (5), p.1077-1101

2005

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Mutations at protein-protein interfaces: Small changes over big surfaces have large impacts on human health

Progress in biophysics and molecular biology, 2017-09, Vol.128, p.3-13

2017

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Dissecting protein‐protein interactions in proteasome assembly: Implication to its self‐assembly

Journal of molecular recognition, 2019-09, Vol.32 (9), p.e2784-n/a

2019

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Transcriptomic analysis of glioblastoma multiforme providing new insights into GPR17 signaling communication

Journal of biomolecular structure & dynamics, 2022-04, Vol.40 (6), p.2586-2599

2022

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Dissecting water binding sites at protein-protein interfaces: a lesson from the atomic structures in the Protein Data Bank

Journal of biomolecular structure & dynamics, 2019-03, Vol.37 (5), p.1204-1219

2019

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Determination of binding affinity upon mutation for type I dockerin-cohesin complexes from Clostridium thermocellum and Clostridium cellulolyticum using deep sequencing

Proteins, structure, function, and bioinformatics, 2016-12, Vol.84 (12), p.1914-1928

2016

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Prediction of Short Linear Protein Binding Regions

Journal of molecular biology, 2012-01, Vol.415 (1), p.193-204

2012

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Targeting protein−protein interfaces using macrocyclic peptides

Biopolymers, 2015-07, Vol.104 (4), p.310-316

2015

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Targeting Eph receptors with peptides and small molecules: Progress and challenges

Seminars in cell & developmental biology, 2012-02, Vol.23 (1), p.51-57

2012

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An atomic model for the human septin hexamer by cryo-EM

Journal of molecular biology, 2021-07, Vol.433 (15), p.167096-167096, Article 167096

2021

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An automated decision-tree approach to predicting protein interaction hot spots

Proteins, structure, function, and bioinformatics, 2007-09, Vol.68 (4), p.813-823

2007

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Transient protein-protein interface prediction: datasets, features, algorithms, and the RAD-T predictor

BMC bioinformatics, 2014-03, Vol.15 (1), p.82-82, Article 82

2014

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Predicting Protein–Protein Interfaces that Bind Intrinsically Disordered Protein Regions

Journal of molecular biology, 2019-08, Vol.431 (17), p.3157-3178

2019

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

PPInterface: A Comprehensive Dataset of 3D Protein-Protein Interface Structures

Flexibility and small pockets at protein–protein interfaces: New insights into druggability

Probing theα-Helical Structural Stability of Stapled p53 Peptides: Molecular Dynamics Simulations and Analysis

Hot spots in protein–protein interfaces: Towards drug discovery

Exploring the potential of 3D Zernike descriptors and SVM for protein-protein interface prediction

KFC2: A knowledge-based hot spot prediction method based on interface solvation, atomic density, and plasticity features

Computational alanine scanning mutagenesis-An improved methodological approach

Marker residue types at the structural regions of transmembrane alpha‐helical and beta‐barrel interfaces

Prediction of quaternary structure by analysis of hot spot residues in protein‐protein interfaces: the case of anthranilate phosphoribosyltransferases

Great interactions: How binding incorrect partners can teach us about protein recognition and function

Hidden partners: Using cross‐docking calculations to predict binding sites for proteins with multiple interactions

The Relationship between the Flexibility of Proteins and their Conformational States on Forming Protein–Protein Complexes with an Application to Protein–Protein Docking

Mutations at protein-protein interfaces: Small changes over big surfaces have large impacts on human health

Dissecting protein‐protein interactions in proteasome assembly: Implication to its self‐assembly

Transcriptomic analysis of glioblastoma multiforme providing new insights into GPR17 signaling communication

Dissecting water binding sites at protein-protein interfaces: a lesson from the atomic structures in the Protein Data Bank

Determination of binding affinity upon mutation for type I dockerin-cohesin complexes from Clostridium thermocellum and Clostridium cellulolyticum using deep sequencing

Prediction of Short Linear Protein Binding Regions

Targeting protein−protein interfaces using macrocyclic peptides

Targeting Eph receptors with peptides and small molecules: Progress and challenges

An atomic model for the human septin hexamer by cryo-EM

An automated decision-tree approach to predicting protein interaction hot spots

Transient protein-protein interface prediction: datasets, features, algorithms, and the RAD-T predictor

Predicting Protein–Protein Interfaces that Bind Intrinsically Disordered Protein Regions

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