Kamiya Narutoshi 神谷成敏

… Alternative Names

Researcher Number	80420462
Other IDs
Affiliation (Current)	2019: 兵庫県立大学, シミュレーション学研究科, 特任教授
Affiliation (based on the past Project Information) *help	2016 – 2017: 兵庫県立大学, シミュレーション学研究科, 特任教授 2015: 国立研究開発法人理化学研究所, 計算科学研究機構, 研究員 2012 – 2014: 大阪大学, たんぱく質研究所, 招へい研究員 2013: 大阪大学, たんぱく質研究所, 特任研究員 2012: 大阪大学, 蛋白質研究所, 招へい研究員 … More
Review Section/Research Field	Principal Investigator Biophysics Except Principal Investigator Biological Sciences / Biophysics
Keywords	Principal Investigator 自由エネルギー / 分子動力学シミュレーション / 構造 / 機能予測 / 構造・機能予測 / 抗原抗体 / 立体構造予測 / 構造予測 / 生物物理 Except Principal Investigator 生物物理 … More

タンパク質と薬剤の複合体構造予測法と結合自由エネルギー計算法の開発Principal InvestigatorOngoing
- Principal Investigator
  
  神谷成敏
- Project Period (FY)
  2016 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Biophysics
- Research Institution
  University of Hyogo
Development of a complex structure prediction method between proteins using binding free-energy as a scoring functionPrincipal Investigator
- Principal Investigator
  
  Kamiya Narutoshi
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Biophysics
- Research Institution
  Institute of Physical and Chemical Research
  Osaka University
Elucidation of information-processing mechanisms during transcription cycle using computational and information sciences
- Principal Investigator
  
  NAKAMURA Haruki
- Project Period (FY)
  2012 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Osaka University
Quantitative computational and informatics studies on protein-protein interaction systems based on their dynamic structures
- Principal Investigator
  
  NAKAMURA Haruki
- Project Period (FY)
  2011 – 2013
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Osaka University
Development of the free-energy evaluation method between protein and drug moleculesPrincipal Investigator
- Principal Investigator
  
  KAMIYA Narutoshi
- Project Period (FY)
  2010 – 2012
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Biophysics
- Research Institution
  Osaka University
Structural Interactome Studies from Computational and Bioinformatics Approaches
- Principal Investigator
  
  NAKAMURA Haruki
- Project Period (FY)
  2008 – 2010
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Osaka University
分子シミュレーション支援による生体超分子複合体の構造機能相関の理論的研究
- Principal Investigator
  
  鷹野優
- Project Period (FY)
  2006 – 2007
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Osaka University
分子シミュレーション支援による生体超分子複合体の構造・機能解析
- Principal Investigator
  
  NAKAMURA Haruki
- Project Period (FY)
  2005
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Osaka University

All 2018 2017 2016 2015 2014 2013 2012 2011 2010 2009 2007 Other

All Journal Article Presentation Book

[Book] タンパク質計算科学2009
- Author(s)
  神谷成敏・肥後順一・福西快文・中村春木
- Total Pages
  251
- Publisher
  共立出版
- Data Source
  KAKENHI-PROJECT-20370061
[Journal Article] Structural and thermodynamic characterization of endo-1,3-β-glucanase: Insights into the substrate recognition mechanism2018
- Author(s)
  M. Oda, S. Inaba, N. Kamiya, G.-J. Bekker, B. Mikami
- Journal Title
  
  Biochim. Biophys. Acta.
  
  Volume: 1866 Pages: 415-425
- DOI
  10.1016/j.bbapap.2017.12.004
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-16K07331, KAKENHI-PROJECT-16H04909
[Journal Article] Accurate Prediction of Complex Structure and Affinity for a Flexible Protein Receptor and Its Inhibitor2017
- Author(s)
  G.-J. Bekker, N. Kamiya, M. Araki, I. Fukuda, Y. Okuno, H. Nakamura
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 13 Pages: 2389-2399
- DOI
  10.1021/acs.jctc.6b01127
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16K07331, KAKENHI-PROJECT-16K14711
[Journal Article] Model building of antibody-antigen complex structures using GBSA scores2016
- Author(s)
  N. Shimba, N. Kamiya, H. Nakamura
- Journal Title
  
  J. Chem. Inf. Model.
  
  Volume: 56 Pages: 2005-2012
- DOI
  10.1021/acs.jcim.6b00066
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-16K07331
[Journal Article] Revisiting antibody modeling assessment for CDR-H3 loop2016
- Author(s)
  Hiroshi Nishigami, Narutoshi Kamiya, Haruki Nakamura
- Journal Title
  
  Protein Eng. Des. Sel.
  
  Volume: 29 Pages: 477-484
- DOI
  10.1093/protein/gzw028
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-16K07331, KAKENHI-PROJECT-16K14711
[Journal Article] Elastic properties of dynein motor domain obtained from all-atom molecular dynamics simulations.2016
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Journal Title
  
  Protein Eng. Des. Sel.
  
  Volume: 29 Pages: 317-325
- DOI
  10.1093/protein/gzw022
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-26291014, KAKENHI-PROJECT-26291034, KAKENHI-PROJECT-16K07331
[Journal Article] The effect of conformational flexibility on binding free energy estimation between kinases and their inhibitors2016
- Author(s)
  M. Araki, N. Kamiya, M. Sato, M. Nakatsui, T. Hirokawa, Y. Okuno
- Journal Title
  
  J. Chem. Inf. Model.
  
  Volume: 56 Pages: 2445-2456
- DOI
  10.1021/acs.jcim.6b00398
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-16K07331
[Journal Article] NMR characterization of the interactionof the endonuclease domain of MutL with divalent metal ions and ATP2014
- Author(s)
  Mizushima R, Kim JK, Suetake I, Tanaka H, Takai T, Kamiya N, Takano Y, Mishima Y, Tajima S, Goto Y, Fukui K, *Lee YH
- Journal Title
  
  PLoS ONE
  
  Volume: 9
- DOI
  10.1371/journal.pone.0098554
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-24570153, KAKENHI-PROJECT-25440070, KAKENHI-PROJECT-25870407
[Journal Article] Specific non-local interactions are not necessary for recovering native protein dynamics.2014
- Author(s)
  Dasgupta B, Kasahara K, Kamiya N, Nakamura H, Kinjo AR
- Journal Title
  
  PLoS One
  
  Volume: 9
- DOI
  10.1371/journal.pone.0091347
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-25440070
[Journal Article] Structure of the Entire Stalk Region of the Dynein Motor Domain2014
- Author(s)
  Yosuke Nishikawa, Takuji Oyama, Narutoshi Kamiya, Takahide Kon, Yoko Y. Toyoshima, Haruki Nakamura, Genji Kurisu
- Journal Title
  
  J. Mol. Biol.
  
  Volume: 426 Pages: 3232-3245
- DOI
  10.1016/j.jmb.2014.06.023
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-24370046, KAKENHI-PUBLICLY-25113504, KAKENHI-PUBLICLY-25117503, KAKENHI-PROJECT-25280109, KAKENHI-PROJECT-25291031, KAKENHI-PROJECT-25440070, KAKENHI-PROJECT-26291014, KAKENHI-PROJECT-26291034, KAKENHI-PROJECT-26440023
[Journal Article] The zero-multipole summation method for estimating electrostatic interactions in molecular dynamics: Analysis of the accuracy and application to liquid systems2014
- Author(s)
  Fukuda I, Kamiya N, Nakamura H
- Journal Title
  
  J. Chem. Phys.
  
  Volume: 140 Pages: 194307-194307
- DOI
  10.1063/1.4875693
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070
[Journal Article] Molecular Dynamics Simulations Accelerated by GPU for Biological Macromolecules with a Non-Ewald Scheme for Electrostatic Interactions.2013
- Author(s)
  Murakami Y, Kinoshita K, Kinjo AR, Nakamura H
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 22 Pages: 1379-1391
- DOI
  10.1002/pro.2329
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008
[Journal Article] Molecular dynamics simulations of double-stranded DNA in explicit solvent model with the zero-dipole summation method2013
- Author(s)
  Arakawa T, Kamiya N, Nakamura H, Fukuda I
- Journal Title
  
  PLoS One
  
  Volume: 8
- DOI
  10.1371/journal.pone.0076606
- Peer Reviewed / Open Access / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070
[Journal Article] Molecular dynamics simulations accelerated by GPU for biological macromoleculas with a non-Ewald scheme for electrostatic interactions2013
- Author(s)
  Mashimo T, Fukunishi Y, Kamiya N, Takano Y, Fukuda I, Nakamura H
- Journal Title
  
  J. Chem. Theo. Comput.
  
  Volume: 9 Pages: 5599-5609
- DOI
  10.1021/ct400342e
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-23657103, KAKENHI-PUBLICLY-25104717, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070
[Journal Article]2013
- Author(s)
  N. Kamiya, I. Fukuda, H. Nakamura
- Journal Title
  
  Chem. Phys. Lett.
  
  Volume: 568-569 Pages: 26-32
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22570160
[Journal Article] Application of Zero-dipole summation method to molecular dynamics simulations of a membrane protein system2013
- Author(s)
  Narutoshi Kamiya
- Journal Title
  
  Chemical Physics Letters
  
  Volume: 568-569 Pages: 26-32
- DOI
  10.1016/j.cplett.2013.03.014
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22570160, KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-23657103, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156, KAKENHI-ORGANIZER-24118001
[Journal Article]2012
- Author(s)
  J. Higo, J. Ikebe, N. Kamiya, H. Nakamura
- Journal Title
  
  Biophys. Rev
  
  Volume: 4 Pages: 27-44
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22570160
[Journal Article]2012
- Author(s)
  I. Fukuda, N. Kamiya, Y. Yonezawa, H. Nakamura
- Journal Title
  
  J. Chem. Phys
  
  Volume: 137 Pages: 54314-54314
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22570160
[Journal Article] Simple and accurate scheme to compute electrostatic interaction: zero-dipole summation technique for molecular system and application to bulk water2012
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Yasushige Yonezawa, Haruki Nakamura
- Journal Title
  
  Journal of Chemical Physics
  
  Volume: 137 Pages: 54314-54314
- DOI
  10.1063/1.4739789
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23370071, KAKENHI-PLANNED-24118008, KAKENHI-ORGANIZER-24118001
[Journal Article] Enhanced and effective conformational sampling of protein molecular systems for their free energy landscapes.2012
- Author(s)
  Higo, J., Ikebe, J., Kamiya, N., Nakamura, H
- Journal Title
  
  Biophysical Reviews
  
  Volume: 4 Pages: 10448-10458
- DOI
  10.1007/s12551-011-0063-6
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-21113006, KAKENHI-PROJECT-22570160, KAKENHI-PROJECT-23370071
[Journal Article] Theory for trivial trajectory parallelization of multicanonical molecular dynamics and application to a polypeptide in water.2011
- Author(s)
  J.Ikebe, K.Umezawa, N.Kamiya, T.Sugihara, Y.Yonezawa, Y.Takano, H.Nakamura, J.Higo
- Journal Title
  
  J.Comput.Chem. 32
  
  Pages: 1286-1297
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370061
[Journal Article] Protein-inhibitor flexible docking by a multicanonical sampling: Native complex structure with the lowest free energy and a free-energy barrier distrinsuishing the native complex from the others.2007
- Author(s)
  N., Kamiya
- Journal Title
  
  BIOPHYSICS 3
  
  Pages: 75-84
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-18054013
[Presentation] Binding mechanism of laminarihexaose to endo-1,3-βglucanase analyzed using molecular dynamics simulations2018
- Author(s)
  N. Kamiya, G.-J. Bekker, S. Inaba, B. Mikami, M. Oda
- Organizer
  The 62nd annual meeting of Biophysical Society
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] マルチカノニカル分子動力学法によるタンパク質・リガンドのフレキシブルドッキング2018
- Author(s)
  神谷　成敏
- Organizer
  近畿化学協会コンピュータ化学部会公開講演会第１０１回例会
- Invited
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Multiscale simulations of cytoplasmic dynein: From all-atom to continuum mechanics2017
- Author(s)
  S. Iida, B. Hanson, N. Kamiya, G. Kurisu, T. Kon, H. Nakamura, S. Harris
- Organizer
  第５５回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Flexible docking between cyclin-dependent kinase 2 and its inhibitor CS3 using multicanonical MD and thermodynamic integration simulations2017
- Author(s)
  G.-J. Bekker, N. Kamiya, M. Araki, I. Fukuda, Y. Okuno, H. Nakamura
- Organizer
  第１７回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Prediction of complex structure and affinity between cyclin-dependent kinase 2 and its inhibitor using multicanonical molecular dynamics and thermodynamic integration simulations2017
- Author(s)
  N. Kamiya, G.-J. Bekker, M. Araki, I. Fukuda, Y. Okuno, H. Nakamura
- Organizer
  The 61st annual meeting of Biophysical Society
- Place of Presentation
  ニューオリンズコンベンションセンター、ニューオリンズ（アメリカ）
- Year and Date
  2017-02-15
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] The effect of conformational flexibility on binding free energy estimation between protein kinases and their inhibitors2017
- Author(s)
  M. Araki, N. Kamiya, M. Sato, M. Nakatsui, T. Hirokawa, Y. Okuno
- Organizer
  The 61st annual meeting of Biophysical Society
- Place of Presentation
  ニューオリンズコンベンションセンター、ニューオリンズ（アメリカ）
- Year and Date
  2017-02-14
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Flexible docking and affinity calculation between CDK2 and its inhibitor CS3 using multicanonical MD and thermodynamic integration2017
- Author(s)
  G.-J. Bekker, N. Kamiya, M. Araki, I. Fukuda, Y. Okuno, H. Nakamura
- Organizer
  第５５回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Prediction of complex structure and affinity of CDK2 and its inhibitor using McMD and TI simulations2017
- Author(s)
  G.-J. Bekker, N. Kamiya, M. Araki, I. Fukuda, Y. Okuno, H. Nakamura
- Organizer
  The 19th IUBAM and the 11th EBSA congress
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] Ligand binding studies of the nuclear receptor PPARgamma using FRET and MD2016
- Author(s)
  N. Kamiya, T. Shiraki
- Organizer
  The 60th annual meeting of Biophysical Society
- Place of Presentation
  Los Angeles convention center, Los Angeles, USA
- Year and Date
  2016-02-28
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Flexible docking between cyclin-dependent kinase 2 and its inhibitor using multicanonical MD2016
- Author(s)
  Gert-Jan Bekker, Narutoshi Kamiya, Mitsugu Araki, Yasushi Okuno, Haruki Nakamura
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場（茨城県、つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] 分子シミュレーションにおける静電相互作用計算法：零多重極子法の理論と実際2016
- Author(s)
  福田育夫, Wang Han, 神谷成敏, 笠原浩太, 寺田透, 櫻庭俊, 中村春木
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場（茨城県、つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Flexible docking between cyclin-dependent kinase 2 and its inhibitor using multicanonical MD2016
- Author(s)
  G.-J.Bekker, N. Kamiya, M. Araki, Y. Okuno, H. Nakamura
- Organizer
  第５４回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場、茨城県つくば市
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] The effect of conformational flexibility on the binding free energy calculation between kinases and their ATP-conpetitive inhibitors2016
- Author(s)
  M. Araki, N. Kamiya, M. Sato, M. Nakatsui, T. Hirokawa, Y. Okuno
- Organizer
  第５４回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場、茨城県つくば市
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] An efficient new methodology for path elucidation and binding free energy calculation2016
- Author(s)
  Gert-Jan Bekker, Narutoshi Kamiya, Haruki Nakamura
- Organizer
  第16回日本蛋白質科学会年会
- Place of Presentation
  福岡国際会議場（福岡県、福岡市）
- Year and Date
  2016-06-07
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Computational method for electrostatic interactions in molecular simulation: theory and practice in the zero-multipole summation2016
- Author(s)
  I. Fukuda, H. Wang, N. Kamiya, K. Kasahara, T. Terada, S. Sakuraba, H. Nakamura
- Organizer
  第５４回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場、茨城県つくば市
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] 巨大生体分子の長時間 MD シミュレーションの開発と生体分子の構造機能相関の解明2016
- Author(s)
  鷹野優、Neetha Mohan、草鹿あゆみ、川端猛、笠原浩太、真下忠彰、神谷成敏、中村春木
- Organizer
  第８回「学際計算科学による新たな知の発展・統合・創出」シンポジウム
- Place of Presentation
  筑波大学計算科学研究センター（茨城県、つくば市）
- Year and Date
  2016-10-17
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Multiscale simulation of cytoplasmic dynein: From all-atom to continuum mechanics2016
- Author(s)
  S. Iida, B. Hanson, N. Kamiya, G. Kurisu, T. Kon, H. Nakamura, S. Harris
- Organizer
  第５４回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場、茨城県つくば市
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-16K07331
[Presentation] A novel method to determine the optimal unbinding path between receptor and ligand using advanced molecular dynamics simulations2015
- Author(s)
  G.-J. Bekker, N. Kamiya, H. Nakamura
- Organizer
  第５３回日本生物物理学会年会
- Place of Presentation
  金沢大学　角間キャンパス, 金沢
- Year and Date
  2015-09-13
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] A novel method to determine the optimal unbinding path between receptor and ligand using advanced molecular dynamics simulation2015
- Author(s)
  Gert-Jan Bekker, 神谷成敏, 中村春木
- Organizer
  第53回日本生物物理学会年会
- Place of Presentation
  金沢大学角間キャンパス（金沢市）
- Year and Date
  2015-09-13
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Accurate ensemble modeling of CDR-H3 loop in antibody2015
- Author(s)
  H. Nishigami, G.-J. Bekker, N. Kamiya, J. Higo, H. Nakamura
- Organizer
  第５３回日本生物物理学会年会
- Place of Presentation
  金沢大学　角間キャンパス, 金沢
- Year and Date
  2015-09-13
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Development and application of novel non-Ewald methods for calculating electrostatic interactions in molecular simulations2015
- Author(s)
  I. Fukuda, N. Kamiya, H. Wang, K. Kasahara, H. Nakamura
- Organizer
  The 29th annual symposium of the Protein Society
- Place of Presentation
  Fira de Barcelona, Barcelona, Spain
- Year and Date
  2015-07-23
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] FRET法とRAMD法を用いた核内受容体PPARγのリガンド結合に関する実験・理論的研究2015
- Author(s)
  神谷　成敏、ベッカー　ガージャン、白木　琢磨、中村　春木
- Organizer
  第１５回日本蛋白質科学会年会
- Place of Presentation
  あわぎんホール, 徳島
- Year and Date
  2015-06-24
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] In-vitro and in-silico studies of ligand binding to the nuclear receptor PPARgamma using FRET and MD2015
- Author(s)
  N. Kamiya, G.-J. Bekker, T. Shiraki, H. Nakamura
- Organizer
  The 29th annual symposium of the Protein Society
- Place of Presentation
  Fira de Barcelona, Barcelona, Spain
- Year and Date
  2015-07-23
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] 分子シミュレーションにおける静電相互作用計算のための新規非エバルト法2015
- Author(s)
  福田育夫, 神谷成敏, Han Wang, 笠原浩太、中村春木
- Organizer
  第53回日本生物物理学会年会
- Place of Presentation
  金沢大学角間キャンパス（金沢市）
- Year and Date
  2015-09-13
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] FRET法とRAMD法を用いた核内受容体PPARγのリガンド結合に関する実験・理論的研究2015
- Author(s)
  神谷成敏, Gert-Jan Bekker, 白木琢磨, 中村春木
- Organizer
  第15回日本蛋白質科学会年会
- Place of Presentation
  あわぎんホール（徳島市）
- Year and Date
  2015-06-24
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] 抗体CDR-H3ループ領域の立体構造予測2015
- Author(s)
  西上博士, Gert-Jan Bekker, 神谷成敏, 肥後順一, 中村春木
- Organizer
  第53回日本生物物理学会年会
- Place of Presentation
  金沢大学角間キャンパス（金沢市）
- Year and Date
  2015-09-13
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] p53蛋白質C末端天然変性領域の構造探索2015
- Author(s)
  飯田慎仁, 神谷成敏, 北條裕信, 中村春木, 肥後順一
- Organizer
  第15回日本蛋白質科学会年会
- Place of Presentation
  あわぎんホール（徳島市）
- Year and Date
  2015-06-24
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Contact number diffusion model for the normal mode analysis of protein structure2014
- Author(s)
  Bhaskar Dasgupta, Kota Kasahara, Narutoshi Kamiya, Haruki Nakamura, Akira Kinjo
- Organizer
  第52回日本生物物理学会年会
- Place of Presentation
  札幌コンベンションセンター
- Year and Date
  2014-09-26
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Molecular dynamics simulations of dynein motor domain in explicit water2014
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  Biophysical society 58th annual meeting
- Place of Presentation
  Moscone center, San Francisco, USA
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Elastic properties of dynein motor domain obatined from all-atom molecular dynamics simulations in explicit water2014
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Organizer
  第52回日本生物物理学会年会
- Place of Presentation
  札幌コンベンションセンター
- Year and Date
  2014-09-25
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] A comparison of 3D conformations of endothelin-1 analogs to find the pharmacophore model required for endothelin ligand2014
- Author(s)
  B. Ma, T. Kawabata, N. Kamiya, H. Nakamura
- Organizer
  Biophysical society 58th annual meeting
- Place of Presentation
  Moscone center, San Francisco, USA
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] All-atomic molecular dynamics simulations of dynein motor domain in explicit water2013
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Organizer
  第13回日本蛋白質科学会年会
- Place of Presentation
  とりぎん文化会館（鳥取市）
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] All-atom molecular dynamics simulations of dynein motor domain in explicit water2013
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Organizer
  Protein Society the 27th Annual Symposium
- Place of Presentation
  Boston Marriott, Boston, USA
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] Crystal structure of endo-1,3-beta-glucanase and its binding to laminarioligosaccharide2013
- Author(s)
  M. Oda, Y. Tanabe, N. Komichi, N. Kamiya, H. Nakamura, B. Mikami
- Organizer
  The 27th annual symposium of the protein society
- Place of Presentation
  Boston marriott copley place, Boston, USA
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Zero-dipole summation method for evaluating eletrostatic interaction in molecular simulation of biomolecular system2013
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Haruki Nakamura
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立京都国際会館
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] All-atom molecular dynamics simulations of dynein motor domain in explicit water2013
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  The 27th annual symposium of the protein society
- Place of Presentation
  Boston marriott copley place, Boston, USA
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] All-atom molecular dynamics simulations of dynein motor domain in explicit water2013
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  Dynein 2013 international workshop
- Place of Presentation
  Orbis Hall, Kobe, Japan
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Flexible docking between antigen and antibody by multicanonical molecular dynamics simulation2012
- Author(s)
  N. Kamiya, J. Higo, H. Nakamura
- Organizer
  日本生物物理学会年会
- Place of Presentation
  兵庫県姫路市
- Year and Date
  2012-09-18
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Molecular dynamics simulation of dynein motor domain in explicit water2012
- Author(s)
  Narutoshi Kamiya
- Organizer
  日本生物物理学会
- Place of Presentation
  名古屋大学
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Molecular dynamics simulations of dynein motor domain in explicit water2012
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  日本生物物理学会年会
- Place of Presentation
  愛知県名古屋市
- Year and Date
  2012-09-24
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Molecular dynamics simulations of dynein motor domain in explicit water2012
- Author(s)
  神谷　成敏
- Organizer
  第50回日本生物物理学会年会
- Place of Presentation
  名古屋大学東山キャンパス
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] Molecular Dynamics Simulations of Ets1-DNA complexes using Zero-Dipole Summation Method2012
- Author(s)
  Takamasa Arakawa, Masaaki Shiina, Kazuhiro Ogata, Narutoshi Kamiya, Ikuo Fukuda, Haruki Nakamura
- Organizer
  第50回日本生物物理学会年会
- Place of Presentation
  名古屋大学
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] A simple non-Ewald scheme: the zero-dipole summation method and its application to molecular systems2012
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Takamasa Arakawa, Haruki Nakamura
- Organizer
  Conference on Computational Physics (CCP2012)
- Place of Presentation
  ニチイ学館・神戸ポートアイランドセンター
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] 抗原・抗体間のフレキシブルドッキング・マルチカノニカル分子動力学シミュレーション2011
- Author(s)
  神谷　成敏
- Organizer
  第11回日本蛋白質科学会年会
- Place of Presentation
  大阪千里
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] Flexible docking between antigen and antibody by multicanonical molecular dynamics simulation2011
- Author(s)
  N.Kamiya, J.Higo, H.Nakamura
- Organizer
  日本生物物理学会学会
- Place of Presentation
  兵庫県姫路市
- Year and Date
  2011-09-18
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] 抗原-抗体間のフレキシブルドッキング・マルチカノニカル分子動力学シミュレーション2011
- Author(s)
  神谷成敏、肥後順一、中村春木
- Organizer
  日本蛋白質科学会年会
- Place of Presentation
  大阪府吹田市
- Year and Date
  2011-06-09
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Conformational transitions in the CDRH3 region of the antidansyl monoclonal antibody by molecular dynamics simulations2010
- Author(s)
  N. Kamiya, J. Ikebe, K. Umezawa, Y. Yonezawa, J. Higo, H. Nakamura
- Organizer
  日本生物物理学会年会
- Place of Presentation
  宮城県仙台市
- Year and Date
  2010-09-20
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Conformational transitions in the CDRH3 region of the anti-dansyl monoclonal antibody by molecular dynamics simulations2010
- Author(s)
  Narutoshi Kamiya, et al.
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学・川内北キャンパス(宮城県仙台市)
- Year and Date
  2010-09-20
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] Structural transitions in the CDRH3 region of the anti-dansyl monoclonal antibody by molecular dynamics simulations2010
- Author(s)
  Narutoshi Kamiya, et al.
- Organizer
  CBI Sceiety 2010
- Place of Presentation
  学術総合センター(東京都千代田区)
- Year and Date
  2010-09-15
- Data Source
  KAKENHI-PROJECT-22570160
[Presentation] The zero-dipole summation method and its application to molecular simulation with homogenous and inhomogeneous systems
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Kota Kasahara, Haruki Nakamura
- Organizer
  The 12th Asia Pacific Physics Conference (APPC12)
- Place of Presentation
  幕張メッセ（千葉市）大手町サンスカイルーム（東京）
- Year and Date
  2013-07-15 – 2013-07-16
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Model building of antibody-antigen complex structures using GB/SA scores
- Author(s)
  N. Kamiya, N. Shimba, H. Nakamura
- Organizer
  The 28th annual meeting of the protein society
- Place of Presentation
  The Manchester grand Hyatt San Diego, San Diego, USA
- Year and Date
  2014-07-27 – 2014-07-30
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] 溶媒を陽に考慮した全原子分子動力学シミュレーションから得られたダイニンの弾性
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  生物物理学会第５２回年会
- Place of Presentation
  札幌コンベンションセンター、札幌
- Year and Date
  2014-09-25 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] A simple non-Ewald scheme for calculating electrostatic interactions of charged particle systems: the zero-dipole summation method and the application to molecular systems
- Author(s)
  Ikuo Fukuda1, Narutoshi Kamiya, Takamasa Arakawa, Tadaaki Mashimo, Yu Takano, Haruki Nakamura
- Organizer
  2013年ハイパフォーマンスコンピューティングと計算科学シンポジウム
- Place of Presentation
  東京工業大学蔵前会館
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] All-atom molecular dynamics simulations of dynein motor domain in explicit water
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Organizer
  Protein Society the 27th Annual Symposium
- Place of Presentation
  Boston Marriott, Copley Place, Boston, USA
- Year and Date
  2013-07-20 – 2013-07-23
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] GPU-accelerated calculation of electrostatic interactions with zero-dipole summation method
- Author(s)
  Tadaaki Mashimo, Yoshifumi Fukunishi, Ikuo Fukuda, Narutoshi Kamiya, Yu Takano, Haruki Nakamura
- Organizer
  2013年ハイパフォーマンスコンピューティングと計算科学シンポジウム
- Place of Presentation
  東京工業大学蔵前会館
- Data Source
  KAKENHI-PROJECT-23370071
[Presentation] GPU-accelerated calculation of electrostatic interactions with zero-dipole summation method
- Author(s)
  Tadaaki Mashimo, Yoshifumi Fukunishi, Ikuo Fukuda, Narutoshi Kamiya, Yu Takano, Haruki Nakamura
- Organizer
  2013年ハイパフォーマンスコンピューティングと計算科学シンポジウム
- Place of Presentation
  東京工業大学蔵前会館
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Zero-dipole summation method for evaluating eletrostatic interaction in molecular simulation of biomolecular system.
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Haruki Nakamura
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立京都国際会館（京都市）
- Year and Date
  2013-10-28 – 2013-10-30
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] 抗原抗体ドッキングのデコイセット評価法
- Author(s)
  榛葉　教子、神谷　成敏、中村　春木
- Organizer
  第１４回日本蛋白質科学会年会
- Place of Presentation
  ワークピア横浜、横浜
- Year and Date
  2014-06-25 – 2014-06-27
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] A simple non-Ewald scheme for calculating electrostatic interactions of charged particle systems: the zero-dipole summation method and the application to molecular systems
- Author(s)
  Ikuo Fukuda, Narutoshi Kamiya, Takamasa Arakawa, Tadaaki Mashimo, Yu Takano, Haruki Nakamura
- Organizer
  2013年ハイパフォーマンスコンピューティングと計算科学シンポジウム
- Place of Presentation
  東京工業大学蔵前会館
- Data Source
  KAKENHI-PLANNED-24118008
[Presentation] Molecular dynamics study on evaluation of a decoy set generated by docking between antibody and antigen
- Author(s)
  N. Kamiya, N. Shimba, H. Nakamura
- Organizer
  The 4th Asia pacific protein association conference
- Place of Presentation
  International convention center, Jeju, Korea
- Year and Date
  2014-05-17 – 2014-05-20
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] Elastic property of dynein motor domain obtained from all-atom molecular dynamics simulations in explicit water
- Author(s)
  N. Kamiya, T. Mashimo, Y. Takano, T. Kon, G. Kurisu, H. Nakamura
- Organizer
  Biophysical society 59th annual meeting
- Place of Presentation
  Baltimore convention center, Baltimore, USA
- Year and Date
  2015-02-07 – 2015-02-11
- Data Source
  KAKENHI-PROJECT-25440070
[Presentation] All-atomic molecular dynamics simulations of dynein motor domain in explicit water
- Author(s)
  Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
- Organizer
  第13回日本蛋白質科学会年会
- Place of Presentation
  とりぎん文化会館（鳥取市）
- Year and Date
  2013-06-12 – 2013-06-14
- Data Source
  KAKENHI-PLANNED-24118008

1. NAKAMURA Haruki (80134485)

# of Collaborated Projects: 5 results

# of Collaborated Products: 38 results
2. YONEZAWA Yasushige (40248753)

# of Collaborated Projects: 3 results

# of Collaborated Products: 1 results
3. HIGO Junichi (80265719)

# of Collaborated Projects: 2 results

# of Collaborated Products: 3 results
4. KINOSHITA Kengjo (60332293)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
5. KINJO Akira R (30370117)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
6. KONO Hidetoshi (40291918)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
7. KASAHARA Kota (90634965)

# of Collaborated Projects: 1 results

# of Collaborated Products: 5 results
8. 中島伸介 (60324852)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
9. 鷹野優 (30403017)

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
10. 大島勘二 (40437330)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
11. 藤井聡 (40452825)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
12. 皿井明倫 (20221286)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
13. IIDA Midori

# of Collaborated Projects: 1 results

# of Collaborated Products: 1 results
14. ISHI Shunsuke

# of Collaborated Projects: 0 results

# of Collaborated Products: 3 results
15. KON Takahide

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
16. OYAMA Takuji

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
17. 末武勲

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
18. 李映昊

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
19. 福田育夫

# of Collaborated Projects: 0 results

# of Collaborated Products: 4 results
20. 栗栖源嗣

# of Collaborated Projects: 0 results

# of Collaborated Products: 2 results
21. 豊島陽子

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
22. 三上文三

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Kamiya Narutoshi 神谷 成敏

KAMIYA Narutoshi 神谷 成敏

神谷 成敏 カミヤ ナルトシ

Research Projects

Research Products

Co-Researchers

タンパク質と薬剤の複合体構造予測法と結合自由エネルギー計算法の開発Principal InvestigatorOngoing

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Development of a complex structure prediction method between proteins using binding free-energy as a scoring functionPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Elucidation of information-processing mechanisms during transcription cycle using computational and information sciences

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Quantitative computational and informatics studies on protein-protein interaction systems based on their dynamic structures

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Development of the free-energy evaluation method between protein and drug moleculesPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

Structural Interactome Studies from Computational and Bioinformatics Approaches

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

分子シミュレーション支援による生体超分子複合体の構造機能相関の理論的研究

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

分子シミュレーション支援による生体超分子複合体の構造・機能解析

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

[Book] タンパク質計算科学2009

Author(s)

Total Pages

Publisher

Data Source

[Journal Article] Structural and thermodynamic characterization of endo-1,3-β-glucanase: Insights into the substrate recognition mechanism2018

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Accurate Prediction of Complex Structure and Affinity for a Flexible Protein Receptor and Its Inhibitor2017

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Model building of antibody-antigen complex structures using GBSA scores2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Revisiting antibody modeling assessment for CDR-H3 loop2016

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Elastic properties of dynein motor domain obtained from all-atom molecular dynamics simulations.2016

Kamiya Narutoshi 神谷成敏

KAMIYA Narutoshi 神谷成敏

神谷成敏カミヤナルトシ