Skip to Main Content

Author Details

Lim Heo
Michigan State University
2011
38
19
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
38000367One bead per residue can describe all-atom protein structures.Structure2024
38000367One bead per residue can describe all-atom protein structures.Structure2024
36607820Modeling Concentration-dependent Phase Separation Processes Involving Peptides and RNA via Residue-Based Coarse-Graining.J Chem Theory Comput2023
36774359Direct generation of protein conformational ensembles via machine learning.Nat Commun2023
36607820Modeling Concentration-dependent Phase Separation Processes Involving Peptides and RNA via Residue-Based Coarse-Graining.J Chem Theory Comput2023
36774359Direct generation of protein conformational ensembles via machine learning.Nat Commun2023
35219215Protein assembly and crowding simulations.Curr Opin Struct Biol2022
35510704Multi-state modeling of G-protein coupled receptors at experimental accuracy.Proteins2022
36279257Characterizing Transient Protein-Protein Interactions by Trp-Cys Quenching and Computer Simulations.J Phys Chem Lett2022
35471152Inhibitory proteins block substrate access by occupying the active site cleft of <i>Bacillus subtilis</i> intramembrane protease SpoIVFB.Elife2022
35219215Protein assembly and crowding simulations.Curr Opin Struct Biol2022
35510704Multi-state modeling of G-protein coupled receptors at experimental accuracy.Proteins2022
35471152Inhibitory proteins block substrate access by occupying the active site cleft of <i>Bacillus subtilis</i> intramembrane protease SpoIVFB.Elife2022
36279257Characterizing Transient Protein-Protein Interactions by Trp-Cys Quenching and Computer Simulations.J Phys Chem Lett2022
33938216GalaxyWater-wKGB: Prediction of Water Positions on Protein Structure Using wKGB Statistical Potential.J Chem Inf Model2021
34156124Physics-based protein structure refinement in the era of artificial intelligence.Proteins2021
33938216GalaxyWater-wKGB: Prediction of Water Positions on Protein Structure Using wKGB Statistical Potential.J Chem Inf Model2021
33562962Improved Sampling Strategies for Protein Model Refinement Based on Molecular Dynamics Simulation.J Chem Theory Comput2021
34428995Biosynthesis and trafficking of heme <i>o</i> and heme <i>a</i>: new structural insights and their implications for reaction mechanisms and prenylated heme transfer.Crit Rev Biochem Mol Biol2021
33562962Improved Sampling Strategies for Protein Model Refinement Based on Molecular Dynamics Simulation.J Chem Theory Comput2021
34428995Biosynthesis and trafficking of heme <i>o</i> and heme <i>a</i>: new structural insights and their implications for reaction mechanisms and prenylated heme transfer.Crit Rev Biochem Mol Biol2021
34156124Physics-based protein structure refinement in the era of artificial intelligence.Proteins2021
32511334Modeling of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Proteins by Machine Learning and Physics-Based Refinement.bioRxiv2020
31693199High-accuracy protein structures by combining machine-learning with physics-based refinement.Proteins2020
32621222Modeling Protein Homo-Oligomer Structures with GalaxyHomomer Web Server.Methods Mol Biol2020
32511334Modeling of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Proteins by Machine Learning and Physics-Based Refinement.bioRxiv2020
31693199High-accuracy protein structures by combining machine-learning with physics-based refinement.Proteins2020
32621222Modeling Protein Homo-Oligomer Structures with GalaxyHomomer Web Server.Methods Mol Biol2020
31001635GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure.Nucleic Acids Res2019
31001635GalaxyRefine2: simultaneous refinement of inaccurate local regions and overall protein structure.Nucleic Acids Res2019
31197841Driven to near-experimental accuracy by refinement via molecular dynamics simulations.Proteins2019
31197841Driven to near-experimental accuracy by refinement via molecular dynamics simulations.Proteins2019
29044810Simultaneous refinement of inaccurate local regions and overall structure in the CASP12 protein model refinement experiment.Proteins2018
28975670What makes it difficult to refine protein models further via molecular dynamics simulations?Proteins2018
29044810Simultaneous refinement of inaccurate local regions and overall structure in the CASP12 protein model refinement experiment.Proteins2018
29967418An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12.Sci Rep2018
30530696Experimental accuracy in protein structure refinement via molecular dynamics simulations.Proc Natl Acad Sci U S A2018
29675899Structure refinement of membrane proteins via molecular dynamics simulations.Proteins2018
29127686The challenge of modeling protein assemblies: the CASP12-CAPRI experiment.Proteins2018
29126101PREFMD: a web server for protein structure refinement via molecular dynamics simulations.Bioinformatics2018
29967418An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12.Sci Rep2018
30530696Experimental accuracy in protein structure refinement via molecular dynamics simulations.Proc Natl Acad Sci U S A2018
29675899Structure refinement of membrane proteins via molecular dynamics simulations.Proteins2018
29127686The challenge of modeling protein assemblies: the CASP12-CAPRI experiment.Proteins2018
29126101PREFMD: a web server for protein structure refinement via molecular dynamics simulations.Bioinformatics2018
28975670What makes it difficult to refine protein models further via molecular dynamics simulations?Proteins2018
28387820GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure.Nucleic Acids Res2017
28387820GalaxyHomomer: a web server for protein homo-oligomer structure prediction from a monomer sequence or structure.Nucleic Acids Res2017
26172288Effective protein model structure refinement by loop modeling and overall relaxation.Proteins2016
27094284Binding Site Prediction of Proteins with Organic Compounds or Peptides Using GALAXY Web Servers.Methods Mol Biol2016
  • 1 - 50 of 76

Recommended Authors

Massimiliano Bonomi
Institut Pasteur, Universite Paris Cite, CNRS UMR 8
Career Start Year 2007
Number of shared co-authors 3
Juergen Haas
University of Basel
Career Start Year 2007
Number of shared co-authors 5
Barak Raveh
The Hebrew University of Jerusalem
Career Start Year 2007
Number of shared co-authors 7
James S Fraser
University of California san francisco
Career Start Year 2006
Number of shared co-authors 10
Frank DiMaio
University of Washington
Career Start Year 2006
Number of shared co-authors 17
Henry van den Bedem
University of California San Francisco
Career Start Year 2002
Number of shared co-authors 1
Rommie E Amaro
University of California
Career Start Year 2001
Number of shared co-authors 5
Hao Fan
College of Biotechnology and Bioengineering, Zhejiang University of Technology
Career Start Year 2001
Number of shared co-authors 2
Matteo Dal Peraro
Institute of Bioengineering
Career Start Year 2001
Number of shared co-authors 5
Maya Topf
Leibniz-Institut fur Virologie (LIV)
Career Start Year 2001
Number of shared co-authors 4
David E Shaw
Columbia University
Career Start Year 2000
Number of shared co-authors 3
Matthew P Jacobson
Department of Pharmaceutical Chemistry, University of California san francisco
Career Start Year 1999
Number of shared co-authors 7
Peter W Rose
University of California
Career Start Year 1999
Number of shared co-authors 9
Torsten Schwede
University of Basel
Career Start Year 1999
Number of shared co-authors 22
Heather A Carlson
University of Michigan ann arbor
Career Start Year 1999
Number of shared co-authors 1
Nikolay V Dokholyan
Pennsylvania State University College of Medicine
Career Start Year 1998
Number of shared co-authors 5
Mallur S Madhusudhan
Indian Institute of Science Education and Research Pune
Career Start Year 1996
Number of shared co-authors 2
Ivet Bahar
Laufer Center for Physical and Quantitative Biology, Stony Brook University
Career Start Year 1994
Number of shared co-authors 1
Paul D Adams
Lawrence Berkeley National Laboratory
Career Start Year 1994
Number of shared co-authors 11
Giorgio Colombo
Fondazione IRCCS Ca' Granda Ospedale Maggiore Policlinico
Career Start Year 1993
Number of shared co-authors 0
Ram Samudrala
Jacobs School of Medicine and Biomedical Sciences, University at Buffalo
Career Start Year 1990
Number of shared co-authors 3
Carlos J Camacho
University of Pittsburgh
Career Start Year 1990
Number of shared co-authors 23
Roland L Dunbrack
Fox Chase Cancer Center
Career Start Year 1989
Number of shared co-authors 25
Randy J Read
Cambridge Institute for Medical Research, University of Cambridge
Career Start Year 1982
Number of shared co-authors 7
Ruben Abagyan
Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California
Career Start Year 1981
Number of shared co-authors 3
Haruki Nakamura
Institute for Protein Research, Osaka University
Career Start Year 1980
Number of shared co-authors 41
Charles L Brooks
University of Michigan ann arbor
Career Start Year 1974
Number of shared co-authors 3
John Moult
Institute for Bioscience and Biotechnology Research
Career Start Year 1970
Number of shared co-authors 10
Andras Fiser
Albert Einstein College of Medicine
Career Start Year 1968
Number of shared co-authors 8
Jens Meiler
Vanderbilt University
Career Start Year 1954
Number of shared co-authors 8

Collaborators

Chaok Seok
Seoul National University
Co-authored papers 21
Michael Feig
Michigan State University
Co-authored papers 17
Hasup Lee
Seoul National University
Co-authored papers 6
Gyu Rie Lee
University of Washington
Co-authored papers 6
Minkyung Baek
Seoul National University
Co-authored papers 5
Hahnbeom Park
Co-authored papers 3
Taeyong Park
Co-authored papers 2
Jianlin Cheng
University of Missouri
Co-authored papers 2
Marc F Lensink
University Lille, CNRS
Co-authored papers 2
Sameer Velankar
European Bioinformatics Institute
Co-authored papers 2
Woong-Hee Shin
Co-authored papers 2
Sangwoo Park
Johns Hopkins University School of Medicine
Co-authored papers 2
Junsu Ko
Co-authored papers 2
Jooyoung Lee
Korea Institute for Advanced Study
Co-authored papers 2
Jilong Li
Qiagen Inc.
Co-authored papers 2
Shoshana J Wodak
VIB-VUB Center for Structural Biology
Co-authored papers 2
Dong Xu
University of Missouri
Co-authored papers 1
Eiichiro Ichiishi
International University of Health and Welfare (IUHV Hospital)
Co-authored papers 1
Anisah W Ghoorah
University of Mauritius
Co-authored papers 1
Neil J Bruce
Heidelberg Institute for Theoretical Studies (HITS)
Co-authored papers 1
Paweſ Krupa
Co-authored papers 1
Zhiwei Ma
Dalton Cardiovascular Research Center, University of Missouri
Co-authored papers 1
Dmitri Beglov
Boston University
Co-authored papers 1
Liming Qiu
Perelman School of Medicine, University of Pennsylvania
Co-authored papers 1
Artem B Mamonov
MGH/Harvard Medical School
Co-authored papers 1
Brian Jim??nez-Garc??a
Utrecht University
Co-authored papers 1
Iain H Moal
GSK Medicines Research Centre
Co-authored papers 1
Rebecca C Wade
Center for Molecular Biology (ZMBH), Heidelberg University
Co-authored papers 1
Renzhi Cao
Pacific Lutheran University
Co-authored papers 1
Bernard Maigret
Universite de Lorraine, CNRS
Co-authored papers 1
Release 1.2