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Author Details

Haruki Nakamura
Institute for Protein Research, Osaka University
1980
333
60
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36659982Non-Ewald methods for evaluating the electrostatic interactions of charge systems: similarity and difference.Biophys Rev2023
37390406Analysis of thermostability for seven Phe to Ala and six Pro to Gly mutants in the Fab constant region of adalimumab.J Biochem2023
36659988Quantum chemical studies on hydrogen bonds in helical secondary structures.Biophys Rev2023
36659982Non-Ewald methods for evaluating the electrostatic interactions of charge systems: similarity and difference.Biophys Rev2023
37390406Analysis of thermostability for seven Phe to Ala and six Pro to Gly mutants in the Fab constant region of adalimumab.J Biochem2023
36659988Quantum chemical studies on hydrogen bonds in helical secondary structures.Biophys Rev2023
36012292Depolarizing Effects in Hydrogen Bond Energy in 3<sub>10</sub>-Helices Revealed by Quantum Chemical Analysis.Int J Mol Sci2022
35963875Fly casting with ligand sliding and orientational selection supporting complex formation of a GPCR and a middle sized flexible molecule.Sci Rep2022
36012292Depolarizing Effects in Hydrogen Bond Energy in 3<sub>10</sub>-Helices Revealed by Quantum Chemical Analysis.Int J Mol Sci2022
35791382Correction to: Announcing changes to the publishing procedures of "Biophysics and Physicobiology" (BPPB)-the Biophysical Society of Japan's English language biophysics journal.Biophys Rev2022
35476872Effect of an intermolecular disulfide bond introduced into the first loop of CH1 domain of Adalimumab Fab on thermal stability and antigen-binding activity.J Biochem2022
35476872Effect of an intermolecular disulfide bond introduced into the first loop of CH1 domain of Adalimumab Fab on thermal stability and antigen-binding activity.J Biochem2022
35791382Correction to: Announcing changes to the publishing procedures of "Biophysics and Physicobiology" (BPPB)-the Biophysical Society of Japan's English language biophysics journal.Biophys Rev2022
35963875Fly casting with ligand sliding and orientational selection supporting complex formation of a GPCR and a middle sized flexible molecule.Sci Rep2022
32007556Continuum mechanical parameterisation of cytoplasmic dynein from atomistic simulation.Methods2021
32007556Continuum mechanical parameterisation of cytoplasmic dynein from atomistic simulation.Methods2021
33633216The dominance model for heterosis explains culm length genetics in a hybrid sorghum variety.Sci Rep2021
33731831Difference of binding modes among three ligands to a receptor mSin3B corresponding to their inhibitory activities.Sci Rep2021
34703720Improve publishing procedures of Biophysics and Physicobiology.Biophys Physicobiol2021
35058998Announcing changes to the publishing procedures of "Biophysics and Physicobiology" (BPPB)-the Biophysical Society of Japan's English language biophysics journal.Biophys Rev2021
35083110Announcement of BPPB paper awards 2021.Biophys Physicobiol2021
33731831Difference of binding modes among three ligands to a receptor mSin3B corresponding to their inhibitory activities.Sci Rep2021
33633216The dominance model for heterosis explains culm length genetics in a hybrid sorghum variety.Sci Rep2021
35058998Announcing changes to the publishing procedures of "Biophysics and Physicobiology" (BPPB)-the Biophysical Society of Japan's English language biophysics journal.Biophys Rev2021
35083110Announcement of BPPB paper awards 2021.Biophys Physicobiol2021
34703720Improve publishing procedures of Biophysics and Physicobiology.Biophys Physicobiol2021
32509488Editorial.Biophys Physicobiol2020
32050721How A Novel Scientific Concept Was Coined the "Molten Globule State".Biomolecules2020
32212057Editorial for the Special Issue of Biophysical Reviews focused on the Biophysical Society of Japan with select scientific content from the 57th BSJ annual meeting, Miyazaki, Japan.Biophys Rev2020
32030637Big data science at AMED-BINDS.Biophys Rev2020
33447497Editorial.Biophys Physicobiol2020
33240741myPresto/omegagene 2020: a molecular dynamics simulation engine for virtual-system coupled sampling.Biophys Physicobiol2020
32910853Molecular Interaction Mechanism of a 14-3-3 Protein with a Phosphorylated Peptide Elucidated by Enhanced Conformational Sampling.J Chem Inf Model2020
32509488Editorial.Biophys Physicobiol2020
32030637Big data science at AMED-BINDS.Biophys Rev2020
32050721How A Novel Scientific Concept Was Coined the "Molten Globule State".Biomolecules2020
33447497Editorial.Biophys Physicobiol2020
33240741myPresto/omegagene 2020: a molecular dynamics simulation engine for virtual-system coupled sampling.Biophys Physicobiol2020
32910853Molecular Interaction Mechanism of a 14-3-3 Protein with a Phosphorylated Peptide Elucidated by Enhanced Conformational Sampling.J Chem Inf Model2020
32212057Editorial for the Special Issue of Biophysical Reviews focused on the Biophysical Society of Japan with select scientific content from the 57th BSJ annual meeting, Miyazaki, Japan.Biophys Rev2020
30855964Multimodal Structural Distribution of the p53 C-Terminal Domain upon Binding to S100B via a Generalized Ensemble Method: From Disorder to Extradisorder.J Chem Theory Comput2019
31608410Free-energy landscape of molecular interactions between endothelin 1 and human endothelin type B receptor: fly-casting mechanism.Protein Eng Des Sel2019
31282023Multidimensional virtual-system coupled canonical molecular dynamics to compute free-energy landscapes of peptide multimer assembly.J Comput Chem2019
30855964Multimodal Structural Distribution of the p53 C-Terminal Domain upon Binding to S100B via a Generalized Ensemble Method: From Disorder to Extradisorder.J Chem Theory Comput2019
31099907Hydrogen bond donors and acceptors are generally depolarized in α-helices as revealed by a molecular tailoring approach.J Comput Chem2019
31608410Free-energy landscape of molecular interactions between endothelin 1 and human endothelin type B receptor: fly-casting mechanism.Protein Eng Des Sel2019
31282023Multidimensional virtual-system coupled canonical molecular dynamics to compute free-energy landscapes of peptide multimer assembly.J Comput Chem2019
31099907Hydrogen bond donors and acceptors are generally depolarized in α-helices as revealed by a molecular tailoring approach.J Comput Chem2019
28815765New tools and functions in data-out activities at Protein Data Bank Japan (PDBj).Protein Sci2018
28865080Density functional study of porphyrin distortion effects on redox potential of heme.J Comput Chem2018
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Collaborators

Helen M Berman
The State University of New Jersey
Co-authored papers 24
Kengo Kinoshita
Co-authored papers 23
John L Markley
University of Wisconsin-Madison
Co-authored papers 21
Daron M Standley
Osaka university
Co-authored papers 19
Yuko Tsuchiya
Co-authored papers 15
Gerard J Kleywegt
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 15
Stephen K Burley
The State University of New Jersey
Co-authored papers 10
Sameer Velankar
European Bioinformatics Institute
Co-authored papers 10
Kim Henrick
The State University of New Jersey
Co-authored papers 8
Bhaskar Dasgupta
Southend Hospital NHS Trust
Co-authored papers 8
John D Westbrook
The State University of New Jersey
Co-authored papers 8
Eiji Kanamori
Co-authored papers 7
Yoichi Murakami
Co-authored papers 6
Genji Kurisu
Institute for Protein Research, Osaka University
Co-authored papers 6
Jasmine Young
The State University of New Jersey
Co-authored papers 6
Eldon L Ulrich
University of Wisconsin-Madison
Co-authored papers 6
Huanwang Yang
The State University of New Jersey
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Zukang Feng
The State University of New Jersey
Co-authored papers 5
Ganesh J Swaminathan
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 5
Catherine L Lawson
Institute for Quantitative Biomedicine, State University of New Jersey
Co-authored papers 5
Aleksandras Gutmanas
European Bioinformatics Institute
Co-authored papers 4
Ardan Patwardhan
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 4
Alexandre M J J Bonvin
Bijvoet Center for Biomolecular Research, Utrecht University
Co-authored papers 4
Chenghua Shao
The State University of New Jersey
Co-authored papers 4
Hiromitsu Shimoyama
Co-authored papers 4
Shoshana J Wodak
VIB-VUB Center for Structural Biology
Co-authored papers 3
Zhiping Weng
University of Massachusetts Medical School
Co-authored papers 3
Panagiotis L Kastritis
Interdisciplinary Research Center HALOmem, Martin Luther University Halle-Wittenberg
Co-authored papers 3
Swanand Gore
Co-authored papers 3
Brian P Hudson
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Release 1.2