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Comparing side chain packing in soluble proteins, protein‐protein interfaces, and transmembrane proteins

Proteins, structure, function, and bioinformatics, 2018-05, Vol.86 (5), p.581-591

2018

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Understanding the physical basis for the side-chain conformational preferences of methionine

Proteins, structure, function, and bioinformatics, 2016-07, Vol.84 (7), p.900-911

2016

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Equilibrium transitions between side-chain conformations in leucine and isoleucine

Proteins, structure, function, and bioinformatics, 2015-08, Vol.83 (8), p.1488-1499

2015

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Prediction and evaluation of side-chain conformations for protein backbone structures

Proteins, structure, function, and bioinformatics, 1996-11, Vol.26 (3), p.323-352

1996

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Improved prediction of protein side-chain conformations with SCWRL4

Proteins, structure, function, and bioinformatics, 2009-12, Vol.77 (4), p.778-795

2009

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Assessment of protein side-chain conformation prediction methods in different residue environments

Proteins, structure, function, and bioinformatics, 2014-09, Vol.82 (9), p.1971-1984

2014

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A graph‐theory algorithm for rapid protein side‐chain prediction

Protein science, 2003-09, Vol.12 (9), p.2001-2014

2003

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Antibody side chain conformations are position‐dependent

Proteins, structure, function, and bioinformatics, 2018-04, Vol.86 (4), p.383-392

2018

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Optimization of rotamers prior to template minimization improves stability predictions made by computational protein design

Protein science, 2015-04, Vol.24 (4), p.545-560

2015

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Improving hybrid statistical and physical forcefields through local structure enumeration

Protein science, 2016-08, Vol.25 (8), p.1525-1534

2016

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Backbone dependency further improves side chain prediction efficiency in the Energy-based Conformer Library (bEBL)

Proteins, structure, function, and bioinformatics, 2014-11, Vol.82 (11), p.3177-3187

2014

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Extending the accuracy limits of prediction for side-chain conformations

Journal of molecular biology, 2001-08, Vol.311 (2), p.421-430

2001

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Protein side-chain modeling with a protein-dependent optimized rotamer library

Proteins, structure, function, and bioinformatics, 2014-09, Vol.82 (9), p.2000-2017

2014

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Structural informatics, modeling, and design with an open-source Molecular Software Library (MSL)

Journal of computational chemistry, 2012-07, Vol.33 (20), p.1645-1661

2012

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Minimal ensembles of side chain conformers for modeling protein-protein interactions

Proteins, structure, function, and bioinformatics, 2012-02, Vol.80 (2), p.591-601

2012

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An energy-based conformer library for side chain optimization: Improved prediction and adjustable sampling

Proteins, structure, function, and bioinformatics, 2012-08, Vol.80 (9), p.2218-2234

2012

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Modeling and experimental assessment of a buried LeuâIle mutation in dengue envelope domain III

Biochemical and biophysical research communications, 2016, Vol.471, p.163-168

2016

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Modeling of protein side-chain conformations with RASP

Methods in molecular biology (Clifton, N.J.), 2014-01, Vol.1137, p.43

2014

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Side-Chain Conformational Changes upon Protein–Protein Association

Journal of molecular biology, 2011-04, Vol.408 (2), p.356-365

2011

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Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool

Journal of molecular biology, 1997-04, Vol.267 (5), p.1268-1282

1997

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Improved side‐chain prediction accuracy using an ab initio potential energy function and a very large rotamer library

Protein science, 2004-03, Vol.13 (3), p.735-751

2004

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Assessment of predictions submitted for the CASP6 comparative modeling category

Proteins, structure, function, and bioinformatics, 2005, Vol.61 (S7), p.27-45

2005

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OPUS‐Rota: A fast and accurate method for side‐chain modeling

Protein science, 2008-09, Vol.17 (9), p.1576-1585

2008

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Polarizable protein packing

Journal of computational chemistry, 2011-05, Vol.32 (7), p.1334-1344

2011

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SHARPEN--Systematic Hierarchical Algorithms for Rotamers and Proteins on an Extended Network

Journal of computational chemistry, 2009-04, Vol.30 (6), p.999-1005

2009

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Comparing side chain packing in soluble proteins, protein‐protein interfaces, and transmembrane proteins

Understanding the physical basis for the side-chain conformational preferences of methionine

Equilibrium transitions between side-chain conformations in leucine and isoleucine

Prediction and evaluation of side-chain conformations for protein backbone structures

Improved prediction of protein side-chain conformations with SCWRL4

Assessment of protein side-chain conformation prediction methods in different residue environments

A graph‐theory algorithm for rapid protein side‐chain prediction

Antibody side chain conformations are position‐dependent

Optimization of rotamers prior to template minimization improves stability predictions made by computational protein design

Improving hybrid statistical and physical forcefields through local structure enumeration

Backbone dependency further improves side chain prediction efficiency in the Energy-based Conformer Library (bEBL)

Extending the accuracy limits of prediction for side-chain conformations

Protein side-chain modeling with a protein-dependent optimized rotamer library

Structural informatics, modeling, and design with an open-source Molecular Software Library (MSL)

Minimal ensembles of side chain conformers for modeling protein-protein interactions

An energy-based conformer library for side chain optimization: Improved prediction and adjustable sampling

Modeling and experimental assessment of a buried LeuâIle mutation in dengue envelope domain III

Modeling of protein side-chain conformations with RASP

Side-Chain Conformational Changes upon Protein–Protein Association

Prediction of protein side-chain rotamers from a backbone-dependent rotamer library: a new homology modeling tool

Improved side‐chain prediction accuracy using an ab initio potential energy function and a very large rotamer library

Assessment of predictions submitted for the CASP6 comparative modeling category

OPUS‐Rota: A fast and accurate method for side‐chain modeling

Polarizable protein packing

SHARPEN--Systematic Hierarchical Algorithms for Rotamers and Proteins on an Extended Network

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