Jeffrey J Gray

发表

Web‐accessible molecular modeling with Rosetta: The Rosetta Online Server that Includes Everyone (ROSIE)

Jens Meiler, Sergey Lyskov, Jeffrey J. Gray, 2018, Protein science : a publication of the Protein Society.

Prediction of homoprotein and heteroprotein complexes by protein docking and template‐based modeling: A CASP‐CAPRI experiment

Daisuke Kihara, Keehyoung Joo, Daisuke Kuroda, 2016, Proteins.

High-resolution protein-protein docking.

Jeffrey J. Gray, Jeffrey J Gray, J. J. Gray, 2006, Current opinion in structural biology.

Better together: Elements of successful scientific software development in a distributed collaborative community

Brian D. Weitzner, Jens Meiler, Roland L. Dunbrack, 2020, PLoS Comput. Biol..

Modeling and docking of antibody structures with Rosetta

Brian D. Weitzner, Roland L Dunbrack, Daisuke Kuroda, 2017, Nature Protocols.

Macromolecular modeling and design in Rosetta: recent methods and frameworks

Brian D. Weitzner, Lars Malmström, Karen R. Khar, 2020, Nature Methods.

Flexible backbone assembly and refinement of symmetrical homomeric complexes

Jeffrey J. Gray, Jeffrey J Gray, Shourya S Roy Burman, 2018, bioRxiv.

Modeling oblong proteins and water‐mediated interfaces with RosettaDock in CAPRI rounds 28–35

Jeffrey J. Gray, Frank DiMaio, Jeffrey J Gray, 2017, Proteins.

Novel sampling strategies and a coarse‐grained score function for docking homomers, flexible heteromers, and oligosaccharides using Rosetta in CAPRI rounds 37–45

Jason W. Labonte, Jeffrey J. Gray, Jeffrey J Gray, 2019, Proteins.

Improved prediction of antibody VL-VH orientation.

Sergey Lyskov, Jeffrey J. Gray, Jeffrey J Gray, 2016, Protein engineering, design & selection : PEDS.

Extending RosettaDock with water, sugar, and pH for prediction of complex structures and affinities for CAPRI rounds 20–27

Krishna Praneeth Kilambi, Richard Bonneau, Jason W. Labonte, 2013, Proteins.

Local motions in a benchmark of allosteric proteins

Jeffrey J. Gray, Michael D. Daily, Jeffrey J Gray, 2007, Proteins.

Pushing the Backbone in Protein-Protein Docking.

Jeffrey J. Gray, Jeffrey J Gray, J. J. Gray, 2016, Structure.

Structural model of the mAb 806-EGFR complex using computational docking followed by computational and experimental mutagenesis.

Jeffrey J. Gray, K Dane Wittrup, Jeffrey J Gray, 2006, Structure.

Targeting the CoREST complex with dual histone deacetylase and demethylase inhibitors

Yun Song, Mingxuan Wu, Jeffrey J Gray, 2018, Nature Communications.

Conformer selection and induced fit in flexible backbone protein-protein docking using computational and NMR ensembles.

Jeffrey J. Gray, Jeffrey J Gray, Sidhartha Chaudhury, 2008, Journal of molecular biology.

Toward the computational design of protein crystals with improved resolution.

Jeffrey J. Gray, Jeffrey J Gray, Jeliazko R Jeliazkov, 2019, Acta crystallographica. Section D, Structural biology.

A Comprehensive, High-Resolution Map of a Gene’s Fitness Landscape

Jason W. Labonte, Marc Ostermeier, Jeffrey J Gray, 2016, Molecular biology and evolution.

Analysis of protein kinase autophosphorylation using expressed protein ligation and computational modeling.

Jeffrey J Gray, Blair C. R. Dancy, Sidhartha Chaudhury, 2008, Journal of the American Chemical Society.

Identification of structural mechanisms of HIV-1 protease specificity using computational peptide docking: implications for drug resistance.

Jeffrey J. Gray, Jeffrey J Gray, Sidhartha Chaudhury, 2009, Structure.

A Parametric Rosetta Energy Function Analysis with LK Peptides on SAM Surfaces.

Jeffrey J. Gray, Jeffrey J Gray, Joseph H. Lubin, 2018, Langmuir : the ACS journal of surfaces and colloids.

Computational predictions of the mutant behavior of AraC.

Jeffrey J Gray, Robert Schleif, J. J. Gray, 2010, Journal of molecular biology.

CAPRI rounds 3–5 reveal promising successes and future challenges for RosettaDock

Jeffrey J. Gray, Michael D. Daily, Jeffrey J Gray, 2005, Proteins.

Applying linear interaction energy method for rational design of noncompetitive allosteric inhibitors of the sarco- and endoplasmic reticulum calcium-ATPase.

Jeffrey J. Gray, Jeffrey J Gray, J. J. Gray, 2005, Journal of medicinal chemistry.

The interaction of proteins with solid surfaces.

Jeffrey J. Gray, Jeffrey J Gray, J. J. Gray, 2004, Current opinion in structural biology.

Prediction of calcite morphology from computational and experimental studies of mutations of a de novo-designed peptide.

Jeffrey J. Gray, Jeffrey J Gray, Sarah B Schrier, 2011, Langmuir : the ACS journal of surfaces and colloids.

The origin of CDR H3 structural diversity.

Brian D. Weitzner, Roland L Dunbrack, Roland L. Dunbrack, 2015, Structure.

Structure prediction of domain insertion proteins from structures of individual domains.

Jeffrey J. Gray, Marc Ostermeier, Jeffrey J Gray, 2008, Structure.

Structure-based design of supercharged, highly thermoresistant antibodies.

Brian Kuhlman, Jeffrey J. Gray, George Georgiou, 2012, Chemistry & biology.

A high throughput mutagenic analysis of yeast sumo structure and function

Jian Lu, Jeffrey J. Gray, Jef D Boeke, 2017, PLoS genetics.