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NAKAMURA Haruki  中村 春木

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Researcher Number 80134485
Other IDs
External Links
Affiliation (based on the past Project Information) *help 2011 – 2017: 大阪大学, たんぱく質研究所, 教授
2015: 大阪大学, 蛋白質研究所, 教授
2013: 大阪大学, 蛋白質研究所, 教授
2009 – 2011: Osaka University, 蛋白質研究所, 教授
2005 – 2008: 大阪大学, たんぱく質研究所, 教授 … More
2004 – 2007: Osaka University, Institute for Protein Research, Professor, 蛋白質研究所, 教授
2000 – 2003: 大阪大学, たんぱく質研究所, 教授
1999 – 2002: Osaka Univ., Inst.Protein Res., Professor, 蛋白質研究所, 教授
1999: 大阪大学, 蛋白質研究所・附属生体分子解析研究センター, 教授
1987: 東京大学, 工学部・物理工学科, 助手
1987: Research Staff, Protein Engineering Research Institute (, 研究員
1986: 東京大学, 工学部, 助手 Less
Review Section/Research Field
Principal Investigator
Biophysics / Biological Sciences / Biophysics
Except Principal Investigator
Biological Sciences / Biophysics / Neurochemistry/Neuropharmacology / Computational science / 生物物性学 / Laboratory medicine / Applied materials / Physical chemistry
Keywords
Principal Investigator
分子動力学 / 分子シミュレーション / 生物物理 / 蛋白質 / シミュレーション計算 / 生体分子 / マルチカノニカル統計 / 蛋白質間相互作用 / データベース / プロテオーム … More / 量子化学計算 / 構造探索 / Molecular dynamics / Simulation Computation / Molecular Recognition / Molecular Dynamics / 分子認識 / 分子動力学計算 / バイオインフォマティクス / 量子化学 / 酵素反応 / 生体生命情報学 / ペプチド構造 / 蛋白質相互作用 / 天然変性 / 理論生物学 / Reaction free energy / Electron state / Molecular simulation / Quantum chemistry / Biological macromolecules / Enzymatic reaction / Biophysics / 反応自由エネルギー / 電子状態 / Algorithm of molecular simulation / MM calculation / Hybrid-QM / Link atom / Localized molecular orbital / Simulation calculation / Electron state of protein molecule / Quantum chemical calculation / QM / 分子計算アルゴリズム / MM-連成計算 / OM / リンク原子 / 局在化分子軌道 / 蛋白質の電子状態計算 / Multicanonical ensemble / Tsallis Statistics / Disordered Structure / Quantum Chemistry / Conformation Sampling / Peptide Conformation / 水素結合 / β-ヘアピン / Tsallis統計 / 不規則構造 / Drug Design / Docking / Free Energy Calculation / Van X / Intein / Segmental Isotope Labeling / ドラッグデザイン / ドッキング / 自由エネルギー計算 / VanX酵素 / インテイン / 区分標識法NMR / Database / Brownian Dynamics / Molecular Surface / Supramolecular Structure / Simulation / Homology Modeling / ループ構造 / チャネル蛋白質 / ブラウニアン・ダイナミクス / 分子表面 / 超分子立体構造 / ホモロジーモデリング / ヌクレオソーム / ポリメラーゼ / 遺伝子 / 転写因子 / 構造予測 / 構造エネルギー / 構造・機能予測 / 蛋白質の構造・機能予測 / 生体超分子複合体 / ドッキング計算 / 蛋白質ループ構造 / 構造アンサンブル予測 / 相互作用 / クリーク探索 / 分子表面電位 / 分子表面形状 / ゲノム情報 … More
Except Principal Investigator
NMR / CD / DSC / MHC / TCR / 転写因子 / 密度汎関数法 / 立体構造 / 蛋白質 / 生体高分子 / タンパク質立体構造 / 立体構造予測 / SUMO化 / 翻訳後修飾 / 酸化ストレス / 活性酸素種 / パーキンソン病 / ユビキチン化 / 遺伝子導入 / パーキンソン病モデル / 遺伝子変異マウス / PGC-1α / 神経変性疾患 / ミトコンドリア / 生存能 / エネルギー代謝 / ニューロン / Necdin / 計算科学 / 数値計算 / サンプリング / 数値積分 / 運動方程式 / 力学系 / 相互作用計算 / 分子動力学 / Biopolymers / Coaxial cell / 4-Terminal electrode cell / パソコン駆動 / 誘電分散 / 同軸型電極 / 四端子電極 / phage display / repertoire / affinity maturation / antibody / 抗原結合部位 / CDRループ / ファージディスプレイ / レパートリー / 親和性成熟 / 抗体 / folding / entropy / enthalpy / peptide exchange / アンタゴニスト / アゴニスト / 熱測定 / 酸性小胞 / 熱安定性 / ペプチド交換 / フォールディング / エントロピー / エンタルピー / ピプチド交換 / X-ray crystallography / chromatin / protein structure / transcription / 蛋白質の立体構造 / 蛋白質-蛋白質相互作用 / X線 / 水素結合 / G蛋白質共役受容体 / DNA結 / クロマチン / 基本転写因子 / 遺伝子修復 / 転写 / X線結晶構造解析 / DNAメチル化 / 核磁気共鳴法 / 蛋白質構造 / DNA結合蛋白質 / 揺らぎの流体力学 / 低周波における異常粘性 / ずり粘性率 / 層圧縮弾性率 / 低周波粘弾性率 / スメティック液晶 / 液晶 / １分子計測 / 分子認識 / 生体生命情報学 / 発現制御 / 遺伝子 / 転写サイクル / ラジカル機構 / p450 / UB3LYP / MRCC / CaMn405クラスター / 反応機構 / 光合成活性中心 / 遷移状態計算 / 酸素添加反応 / メタンモノオキシゲネース / 水分解反応 / 光合成PSII / OEC / CaMn_4O_5クラスター / p-450 / MMO, OEC, PSII / p. 450 / 理論的研究 / 機能発現 / 化学反応性 / 電子構造 / 生体内多核遷移金属錯体 / タンパク質のダイナミクス / ハブタンパク質 / ダイナミクス / タンパク質のゆらぎ / X線小角散乱 / 核内タンパク質 / 高速AFM / Ｘ線小角散乱 / 天然変性タンパク質 / 化学結合 / 自然軌道解析 / 電子状態計算 / 金属タンパク質 / 分子軌道法 / 分子動力学法 / モノアミン酸化酵素A / チトクロムc酸化酵素 / ドッキングシュミレーション / 静電ポテンシャル / リガンド結合部位 / 分子表面 / シグナル伝達 / トランスポーター / 分子間相互作用 / バイオインフォマティクス / トランスポートゾーム / タンパク質問相互作用 / 蛋白質立体構造 / 共発現 / 膜分子輸送複合体 / タンパク質間相互作用 / 遺伝子共発現 / DNAマイクロアレイ / トランスポートソーム / 膜輸送複合体 / 水と生体分子のダイナミクス / 蛋白質の物性 / 蛋白質の構造 / 蛋白質の機能 / 分子シミュレーション / 水の構造と物性 / 蛋白質フォールディング / プロテオミックス / プロテオーム / 機能ゲノミックス / 構造ゲノミックス / ゲノム情報 / 構造生物学 / 計算生物学 Less

  • Research Projects

    (28 results)

  • Research Products

    (531 results)

  • Co-Researchers

    (87 People)

  •  Computational study for multistery of intrinsic disordered region of proteins with post-translational modificationPrincipal Investigator

    • Principal Investigator
      Nakamura Haruki
    • Project Period (FY)
      2016 – 2017
    • Research Category
      Grant-in-Aid for Challenging Exploratory Research
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  Development of fundamental methods for fast, accurate, and stable simulation of molecular dynamics

    • Principal Investigator
      Fukuda Ikuo
    • Project Period (FY)
      2013 – 2015
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Computational science
    • Research Institution
      Osaka University

  •  Promotion of the Transcription Cycle Area

    • Principal Investigator
      YAMAGUCHI Yuki
    • 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
      Tokyo Institute of Technology

  •  Elucidation of information-processing mechanisms during transcription cycle using computational and information sciencesPrincipal Investigator

    • 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

  •  Strengthening mechanism of neuronal vitality by necdin

    • Principal Investigator
      YOSHIKAWA Kazuaki
    • Project Period (FY)
      2012 – 2015
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Research Field
      Neurochemistry/Neuropharmacology
    • Research Institution
      Osaka University

  •  Quantitative computational and informatics studies on protein-protein interaction systems based on their dynamic structuresPrincipal Investigator

    • 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 and validation of a new force field depending on protein structures for molecular dynamics simulationsPrincipal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2011 – 2012
    • Research Category
      Grant-in-Aid for Challenging Exploratory Research
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  Target recognition and expression mechanism of intrinsically disordered protein

    • Principal Investigator
      SATO Mamoru
    • Project Period (FY)
      2009 – 2013
    • Research Category
      Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
    • Review Section
      Biological Sciences
    • Research Institution
      Yokohama City University

  •  Theoretical studies of electronic structure, chemical reaction and function of multi-nuclear transition-metal complexes in biological systems

    • Principal Investigator
      YAMAGUCHI Kizashi
    • Project Period (FY)
      2009 – 2011
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Physical chemistry
    • Research Institution
      公益財団法人豊田理化学研究所
      Toyota Physical & Chemical Research Institute

  •  分子シミュレーション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)
      2008 – 2009
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      Osaka University

  •  Structural Interactome Studies from Computational and Bioinformatics ApproachesPrincipal Investigator

    • 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
      TAKANO Yu
    • Project Period (FY)
      2006 – 2007
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      Osaka University

  •  Theortical study of free energy landscapes of biological macromolecules by the hybrid computation for electronic structure and molecular structure samplingPrincipal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2006 – 2007
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  構造プロテオミクスに基づく蛋白質間相互作用の解析と予測Principal Investigator

    • Principal Investigator
      中村 春木
    • Project Period (FY)
      2005
    • 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

    • Principal Investigator
      中村 春木
    • Project Period (FY)
      2005
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      Osaka University

  •  Construction and analyses of interaction network for transportsomeusing structural information

    • Principal Investigator
      KINOSHITA Kengo
    • Project Period (FY)
      2005 – 2009
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo

  •  Theoretical studies on the electronic states of biological system, applying the effect of protein and solvent molecules.Principal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2003 – 2004
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  蛋白質フォールディング研究の企画調査

    • Principal Investigator
      桑島 邦博
    • Project Period (FY)
      2001
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      The University of Tokyo

  •  自由エネルギー地形計算に基づく蛋白質のモデル構造データベースの構築と応用Principal Investigator

    • Principal Investigator
      中村 春木
    • Project Period (FY)
      2000
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (C)
    • Review Section
      Biological Sciences
    • Research Institution
      Osaka University

  •  Structural and Informatics Basis of Channel Protein InteractionsPrincipal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2000 – 2004
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      Osaka University

  •  Exploring the immunological and structural basis for obtaining high affinity antibodies facilitating a performance of protein-chip for clinical investigation.

    • Principal Investigator
      FURUKAWA Koji
    • Project Period (FY)
      2000 – 2002
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Research Field
      Laboratory medicine
    • Research Institution
      National Institute of Advanced Industrial Science and Technology (AIST)
      Tokyo University of Science

  •  Application of Segmental Isotope Labeling Method for Protein NMR and Free Energy Calculation for Development of Inhibitors for Proteins.Principal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2000 – 2001
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  Prediction of Protein Fold and Analysis of Protein Folding ProcedurePrincipal Investigator

    • Principal Investigator
      NAKAMURA Haruki
    • Project Period (FY)
      2000 – 2001
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      Osaka University

  •  プロテオーム時代の計算情報生物学

    • Principal Investigator
      郷 通子
    • Project Period (FY)
      1999
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      Nagoya University

  •  Roles of protein-protein interactions in nuclear signal transductions

    • Principal Investigator
      SHIRAKAWA Masahiro
    • Project Period (FY)
      1998 – 2001
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (A)
    • Review Section
      Biological Sciences
    • Research Institution
      Yokohama City University
      Nara Institute of Science and Technology

  •  Biophysical studies of TCR and their ligands, and interactions of them.

    • Principal Investigator
      KOZONO Haruo
    • Project Period (FY)
      1998 – 1999
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      Science University of Tokyo

  •  液晶の低周波ずり粘弾性の研究

    • Principal Investigator
      岡野 光治
    • Project Period (FY)
      1987
    • Research Category
      Grant-in-Aid for General Scientific Research (C)
    • Research Field
      Applied materials
    • Research Institution
      The University of Tokyo

  •  Development of an Electrode Cell for Dielectric Measurements of Biopolymers.

    • Principal Investigator
      MINAKATA Akira
    • Project Period (FY)
      1985 – 1987
    • Research Category
      Grant-in-Aid for Developmental Scientific Research
    • Research Field
      生物物性学
    • Research Institution
      Hamamatsu University School of Medicine

All 2018 2017 2016 2015 2014 2013 2012 2011 2010 2009 2008 2007 2006 2004 2003 2001 Other

All Journal Article Presentation Book

  • [Book] 生命のメカニズム - 美しいイメージで学ぶ構造生命科学入門2015
    • Author(s)
      中村春木（監訳）、工藤高裕、西川建、中村春木（訳）
    • Total Pages
      168
    • Publisher
      シナジー
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Book] 生命のメカニズム - 美しいイメージで学ぶ構造生命科学入門 -2015
    • Author(s)
      中村春木（監訳）、工藤高裕、西川建、中村春木（訳）
    • Total Pages
      168
    • Publisher
      シナジー
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Book] 生命科学から創薬へのイノベーション2014
    • Author(s)
      米田悦啓、堤康央、石井健（編）、中村春木他45名
    • Total Pages
      202
    • Publisher
      南山堂
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Book] 見てわかる構造生命科学 - 生命科学研究へのタンパク質構造の利用 -2014
    • Author(s)
      中村春木（編）、中村春木他9名
    • Total Pages
      326
    • Publisher
      化学同人
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Book] 見てわかる構造生命科学 - 生命科学研究へのタンパク質構造の利用 -2014
    • Author(s)
      中村春木（編）、中村春木他9名
    • Total Pages
      326
    • Publisher
      化学同人
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Book] 生命科学から創薬へのイノベーション2014
    • Author(s)
      米田悦啓、堤康央、石井健（編）、中村春木他45名
    • Total Pages
      202
    • Publisher
      南山堂
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Book] "Prediction of Protein-Protein Complex Structures" in Biomolecular Forms and Functions : A Celebration of 50 years of the Ramachandran Map(Eds. Manju Bansal & N. Srinivasan)2013
    • Author(s)
      Kanamori E, Murakami Y, Sarmiento J, Liang S, Standley DM, Shirota M, Kinoshita K, Tsuchiya Y, Higo J, Nakamura H
    • Publisher
      World Scientific Publishing
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Book] Biomolecular Forms and Functions: A Celebration of 50 years of the Ramachandran Map（Eds. Manju Bansal & N. Srinivasan)2013
    • Author(s)
      Kanamori E., Murakami Y., Sarmiento J., Liang S., Standley D. M., Shirota M., Kinoshita K., Tsuchiya Y., Higo J., Nakamura H.
    • Total Pages
      502
    • Publisher
      World Scientific Publishing
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Book] やさしい原理からはいるタンパク質科学実験法:タンパク質のはたらきを知る・分子機能と生体作用・(長谷・高尾・高木編)2009
    • Author(s)
      中村春木
    • Total Pages
      171
    • Publisher
      化学同人
    • Data Source
      KAKENHI-PROJECT-20370061

  • [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

  • [Book] やさしい原理からはいるタンパク質科学実験法:タンパク質のはたらきを知る-分子機能と生体作用-(「タンパク質のデータベースとインフォマティクス」)(長谷・高尾・高木編)第7章2009
    • Author(s)
      中村春木
    • Publisher
      化学同人
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Book] 医学を学ぶための生物学 : VI2004
    • Author(s)
      中村春木
    • Total Pages
      510
    • Publisher
      南江堂
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] Forefront of New Drug Development Strategies2004
    • Author(s)
      Nakamura, Haruki 他 (Takeuchi, Masahiro, Lagakos, Stephen W 編)
    • Total Pages
      327
    • Publisher
      (有)デジタルプレス
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] Biology to learn medicine : VI.2003
    • Author(s)
      Nakamura H.
    • Total Pages
      29
    • Publisher
      Tokyo-Kagaku-Dojin.
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] 情報生物学講義2タンパク質構造と情報科学2003
    • Author(s)
      中村春木
    • Total Pages
      28
    • Publisher
      財団法人国際高等研究所
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] Protein structure and scientific information.2003
    • Author(s)
      Nakamura H.
    • Total Pages
      28
    • Publisher
      Kokusai-Koto-Kenkyusyo.
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] 基礎生化学実験法第3巻タンパク質II2001
    • Author(s)
      中村春木
    • Total Pages
      242
    • Publisher
      日本生化学会
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] タンパク質立体構造のデザイン2001
    • Author(s)
      中村春木
    • Total Pages
      248
    • Publisher
      共立出版
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] バイオサイエンスの新世紀、第3巻「タンパク質の分子設計」(後藤祐児、谷澤克行編)2001
    • Author(s)
      古川功治, 中村春木
    • Total Pages
      13
    • Publisher
      共立出版(東京)
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12557239

  • [Book] Design of protein structures.2001
    • Author(s)
      Nakamura H.
    • Total Pages
      248
    • Publisher
      Kyoritsu publishers.
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Book] Experimental protocols for basis biochemistry Vol. III.2001
    • Author(s)
      Nakamura H.
    • Total Pages
      242
    • Publisher
      Japanese Biochemical Society.
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-12144206

  • [Journal Article] Phosphorylation of an intrinsically disordered region of Ets1 shifts a multi-modal interaction ensemble to an out-inhibitory state.2018
    • Author(s)
      Kota Kasahara, Masaaki Shiina, Junichi Higo, Kazuhiro Ogata, Haruki Nakamura.
    • Journal Title

      Nucleic Acids Research

      Volume: 46 Issue: 5 Pages: 2243-2251

    • DOI

      10.1093/nar/gkx1297

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-16K05517, KAKENHI-PROJECT-16K18526, KAKENHI-PROJECT-16K14711, KAKENHI-PROJECT-18K19305, KAKENHI-PROJECT-16H03293

  • [Journal Article] Molecular mechanisms of cooperative binding of transcription factors Runx1-CBFβ-Ets1 on the TCRα gene enhancer2017
    • Author(s)
      Kasahara K, Shiina M, Fukuda I, Ogata K, Nakamura H
    • Journal Title

      PloS One

      Volume: 12 Issue: 2 Pages: e0172654-e0172654

    • DOI

      10.1371/journal.pone.0172654

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118005, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-26330331, KAKENHI-PROJECT-16K18526, KAKENHI-PROJECT-16K14711, KAKENHI-PROJECT-16H03293

  • [Journal Article] Multi-dimensional virtual system introduced to enhance canonical sampling.2017
    • Author(s)
      Junichi Higo, Kota Kasahara, Haruki Nakamura.
    • Journal Title

      J. Chem. Phys.

      Volume: 147 Issue: 13 Pages: 134102-134102

    • DOI

      10.1063/1.4986129

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-16K05517, KAKENHI-PROJECT-16K18526, KAKENHI-PROJECT-16K14711

  • [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

      J. Chem. Theory Comput.

      Volume: 13 Issue: 6 Pages: 2389-2399

    • DOI

      10.1021/acs.jctc.6b01127

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-16K07331, KAKENHI-PROJECT-16K14711

  • [Journal Article] Enhancement of canonical sampling by virtual-state transitions2017
    • Author(s)
      Junichi Higo, Kota Kasahara, Bhaskar Dasgupta, Haruki Nakamura
    • Journal Title

      J. Chem. Phys.

      Volume: 146 Issue: 4 Pages: 44104-44104

    • DOI

      10.1063/1.4974087

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-16K14711, KAKENHI-PROJECT-16K18526, KAKENHI-PROJECT-16K05517

  • [Journal Article] myPresto/omegagene: a GPU-accelerated molecular dynamics simulator tailored for enhanced conformational sampling methods with a non-Ewald electrostatic scheme2016
    • Author(s)
      Kota Kasahara, Benson Ma, Kota Goto, Bhaskar Dasgupta, Junichi Higo, Ikuo Fukuda, Tadaaki Mashimo, Yutaka Akiyama, Haruki Nakamura
    • Journal Title

      Biophysics and Physicobiology

      Volume: 13 Issue: 0 Pages: 209-216

    • DOI

      10.2142/biophysico.13.0_209

    • NAID

      130007041560

    • ISSN
      2189-4779
    • Language
      English
    • Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-16K05517, KAKENHI-PROJECT-16K18526

  • [Journal Article] Identification of aryl hydrocarbon receptor signaling pathways altered in TCDD- treated red seabream embryos by transcriptome analysis2016
    • Author(s)
      Midori Iida, Satoshi Fujii, Masaya Uchida, , Hiroshi Nakamura, Yoshihiro Kagami, Tetsuro Agusa, Masashi Hirano, Su-Min Bak, Eun-Young Kim, Hisato Iwata
    • Journal Title

      Aquatic Toxicology

      Volume: 177 Pages: 156-170

    • DOI

      10.1016/j.aquatox.2016.05.014

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-26220103, KAKENHI-PROJECT-16H05887, KAKENHI-PROJECT-26550083, KAKENHI-PROJECT-15K21204

  • [Journal Article] Revisiting Antibody Modeling Assessment for CDR-H3 loop2016
    • Author(s)
      Hiroshi Nishigami, Narutoshi Kamiya, Haruki Nakamura
    • Journal Title

      Protein Engineering, Design and Selection

      Volume: 29 Issue: 11 Pages: 477-484

    • DOI

      10.1093/protein/gzw028

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-16K07331, KAKENHI-PROJECT-16K14711

  • [Journal Article] mDCC_tools: Characterizing Multi-modal Atomic Motions in Molecular Dynamics Trajectories2016
    • Author(s)
      Kota Kasahara, Neetha Mohan, Ikuo Fukuda, Haruki Nakamura
    • Journal Title

      Bioinformatics

      Volume: 32 Issue: 16 Pages: 2531-2533

    • DOI

      10.1093/bioinformatics/btw129

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] A critical appraisal of the zero-multipole method: Structural, thermodynamic, dielectrid, and dynamical properties of a water system2016
    • Author(s)
      Wang H, Nakamura H, Fukuda I
    • Journal Title

      Journal of Chemical Physics

      Volume: 144 Issue: 11 Pages: 114503-114503

    • DOI

      10.1063/1.4943956

    • Peer Reviewed / Acknowledgement Compliant / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156

  • [Journal Article] Phenotypic spectrum of GNAO1 variants: epileptic encephalopathy to involuntary movements with severe developmental delay2016
    • Author(s)
      Saitsu H, Fukai R, Ben-Zeev B, Sakai Y, Mimaki M, Okamoto N, Suzuki Y, Monden Y, Saito H, Tziperman B, Torio M, Akamine S, Takahashi N, Osaka H, Yamagata T, Nakamura K, Tsurusaki Y, Nakashima M, Miyake N, Shiina M, Ogata K, Matsumoto N
    • Journal Title

      Eur J Hum Genet

      Volume: 24(1) Issue: 1 Pages: 129-134

    • DOI

      10.1038/ejhg.2015.92

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-26330331, KAKENHI-PROJECT-15K19660, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118005, KAKENHI-PROJECT-25461539, KAKENHI-PROJECT-26860781, KAKENHI-PROJECT-25293085, KAKENHI-PROJECT-25293235

  • [Journal Article] Omokage search: shape similarity search service for biomolecular structures in both the PDB and EMDB.2016
    • Author(s)
      Hirofumi Suzuki, Takeshi Kawabata, Haruki Nakamura
    • Journal Title

      Ｂｉｏｉｎｆｏｒｍａｔｉｃｓ

      Volume: 32 Issue: 4 Pages: 619-620

    • DOI

      10.1093/bioinformatics/btv614

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-PROJECT-26440078, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] Density functional study of molecular interactions in secondary structures of proteins2016
    • Author(s)
      Takano Y, Kusaka A, Nakamura H
    • Journal Title

      Biophysics and Physicobiology

      Volume: 13 Issue: 0 Pages: 27-35

    • DOI

      10.2142/biophysico.13.0_27

    • NAID

      130005126232

    • ISSN
      2189-4779
    • Language
      English
    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-ORGANIZER-26105001, KAKENHI-PLANNED-26105012

  • [Journal Article] Elastic properties of dynein motor domain obtained from all-atom molecular dynamics simulations2016
    • Author(s)
      Narutoshi Kamiya, Tadaaki Mashimo, Yu Takano, Takahide Kon, Genji Kurisu, Haruki Nakamura
    • Journal Title

      Protein Engineering, Design and Selection

      Volume: 29 Issue: 8 Pages: 317-325

    • DOI

      10.1093/protein/gzw022

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-26291014, KAKENHI-PROJECT-26291034, KAKENHI-PROJECT-16K07331

  • [Journal Article] Variation of Free-Energy Landscape of the p53 C-terminal Domain Induced by Acetylation: Enhanced Conformational Sampling2016
    • Author(s)
      Shinji Iida, Tadaaki Mashimo, Takashi Kurosawa, Hironobu Hojo, Hiroya Muta, Yuji Goto, Yoshifumi Fukunishi, Haruki Nakamura, Junichi Higo
    • Journal Title

      J. Comput. Chem.

      Volume: 37 Issue: 31 Pages: 2687-2700

    • DOI

      10.1002/jcc.24494

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-16H04180, KAKENHI-PROJECT-16K05517

  • [Journal Article] Pathogenic Variants in PIGG Cause Intellectual Disability with Seizures and Hypotonia2016
    • Author(s)
      Makrythanasis P, Kato M, Zaki MS, Saitsu H, Nakamura K, Santoni FA, Miyatake S, Nakashima M, Issa MY, Guipponi M, Letourneau A, Logan CV, Roberts N, Parry DA, Johnson CA, Matsumoto N, Hamamy H, Sheridan E, Kinoshita T, Antonarakis SE, Murakami Y.
    • Journal Title

      Am J Hum Genet

      Volume: 98 Issue: 4 Pages: 615-626

    • DOI

      10.1016/j.ajhg.2016.02.007

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-26860781, KAKENHI-PROJECT-25293085, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118007, KAKENHI-PROJECT-16K19626

  • [Journal Article] Development of Massive Multilevel Molecular Dynamics Simulation Program, Platypus (PLATform for dYnamic Protein Unified Simulation), for the Elucidation of Protein2016
    • Author(s)
      Takano Y, Nakata K, Yonezawa Y, Nakamura H
    • Journal Title

      Journal of Computational Chemistry

      Volume: 37 Issue: 12 Pages: 1125-1132

    • DOI

      10.1002/jcc.24318

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-ORGANIZER-26105001, KAKENHI-PLANNED-26105012

  • [Journal Article] Identification of diphtheria toxin R domain mutants with enhanced inhibitory activity against HB-EGF2015
    • Author(s)
      Suzuki K, Mizushima H, Abe H, Iwamoto R, Nakamura H, Mekada E
    • Journal Title

      J Biochem

      Volume: mvu079 Issue: 5 Pages: 331-343

    • DOI

      10.1093/jb/mvu079

    • NAID

      40020461422

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23570227, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-26460525, KAKENHI-PROJECT-15K07046, KAKENHI-PROJECT-24570212, KAKENHI-PROJECT-26250033

  • [Journal Article] Virtual-system coupled adaptive umbrella sampling to compute free-energy landscape for flexible molecular docking2015
    • Author(s)
      Higo J, Dasgupta B, Mashimo T, Kasahara K, Fukunishi Y, Nakamura H
    • Journal Title

      Journal of Computational Chemistry

      Volume: 36 Issue: 20 Pages: 1489-1501

    • DOI

      10.1002/jcc.23948

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] Identification of HOXD4 Mutations in Spinal Extradural Arachnoid Cyst2015
    • Author(s)
      Ogura Y, Miyake N, Kou I, Iida A, Nakajima M, Takeda K, Fujibayashi S, Shiina M, Okada E, Toyama Y, Iwanami A, Ishii K, Ogata K, Asahara H, Matsumoto N, Nakamura M, Matsumoto M, Ikegawa S
    • Journal Title

      PLoS One

      Volume: 10(11) Issue: 11 Pages: e0142126-e0142126

    • DOI

      10.1371/journal.pone.0142126

    • NAID

      120005763410

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-26330331, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118005, KAKENHI-PLANNED-24118007, KAKENHI-PROJECT-25293235

  • [Journal Article] Computational Study of Drug Binding Affinity to Influenza A Neuraminidase Using Smooth Reaction Path Generation (SRPG) Method2015
    • Author(s)
      Nguyen H, Tran T, Fukunishi Y, Higo J, Nakamura H, Le L
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 55 Issue: 9 Pages: 1936-1943

    • DOI

      10.1021/acs.jcim.5b00319

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] High-resolution modeling of antibody structures by a combination of bioinformatics, expert knowledge, and molecular simulations.2014
    • Author(s)
      Hiroki Shirai, Kazuyoshi Ikeda, Kazuo Yamashita, Yuko Tsuchiya, Jamica Sarmiento, Shide Liang, Tatsuaki Morokata, Kenji Mizuguchi, Junichi Higo, Daron M. Standley, Haruki Nakamura
    • Journal Title

      Proteins

      Volume: 印刷中 Issue: 8 Pages: 1624-1635

    • DOI

      10.1002/prot.24591

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25430186

  • [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

      Journal of Molecular Biology

      Volume: 426 Issue: 19 Pages: 3232-3245

    • DOI

      10.1016/j.jmb.2014.06.023

    • Peer Reviewed
    • 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] Density functional study of the phosphodiester hydrolysis of RNA in RNA/DNA hybrid by RNase H2014
    • Author(s)
      Kita M, Nakamura H, Takano Y
    • Journal Title

      Mol. Phys

      Volume: 112 Issue: 3-4 Pages: 355-364

    • DOI

      10.1080/00268976.2013.820854

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23657103, KAKENHI-PUBLICLY-25104717

  • [Journal Article] Blind prediction of interfacial water positions in CAPRI2014
    • Author(s)
      Lensink MF, et al
    • Journal Title

      Proteins

      Volume: 82 Issue: 4 Pages: 620-632

    • DOI

      10.1002/prot.24439

    • Peer Reviewed
    • Data Source
      KAKENHI-PLANNED-22136005, KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-24570176

  • [Journal Article] Specific non-local interactions are not necessary for recovering native protein dynamics2014
    • Author(s)
      Dasgupta B, Kasahara K, Kamiya N, Nakamura H, Kinjo AR
    • Journal Title

      PLoS ONE

      Volume: 9 Issue: 3 Pages: e91347-e91347

    • DOI

      10.1371/journal.pone.0091347

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-25440070

  • [Journal Article] AKT3 and PIK3R2 mutations in two patients with megalencephaly-related syndromes2014
    • Author(s)
      Nakamura K, Kato M, Tohyama J, Shiohama T, Hayasaka K, Nishiyama K, Kodera H, Nakashima M, Tsurusaki Y, Miyake N, Matsumoto N, Saitsu H.
    • Journal Title

      Clin Genet

      Volume: 85（4） Issue: 4 Pages: 396-398

    • DOI

      10.1111/cge.12188

    • Peer Reviewed / Acknowledgement Compliant
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118007, KAKENHI-PROJECT-24249019, KAKENHI-PROJECT-26860816

  • [Journal Article] Kotai Antibody Builder: Automated, high-resolution structural modeling of antibodies2014
    • Author(s)
      Kazuo Yamashita, Kazuyoshi Ikeda, Karlou Amada, Shide Liang, Yuko Tsuchiya,Haruki Nakamura, Hiroki Shirai, Daron M Standley
    • Journal Title

      Bioinformatics

      Volume: 30 (22) Pages: 3279-3280

    • Peer Reviewed
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Journal Article] Rigid-body motions of interacting proteins dominate multi-specific binding of Ubiquitin in a shape-dependent manner2014
    • Author(s)
      Dasgupta B, Nakamura H, Kinjo AR
    • Journal Title

      Proteins

      Volume: 82 Issue: 1 Pages: 77-89

    • DOI

      10.1002/prot.24371

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Journal Article] 3D flexible alignment using 2D maximum common substructure: dependence of prediction accuracy on target-reference chemical similarity2014
    • Author(s)
      Takeshi Kawabata, Haruki Nakamura
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 54 (7) Issue: 7 Pages: 1850-1863

    • DOI

      10.1021/ci500006d

    • Peer Reviewed
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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 Issue: 19 Pages: 194307-194307

    • DOI

      10.1063/1.4875693

    • NAID

      120005596268

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070

  • [Journal Article] A Novel Approach of Dynamic Cross Correlation Analysis on Molecular Dynamics Simulations and its Application to Ets1 dimer–DNA Complex2014
    • Author(s)
      Kota Kasahara, Ikuo Fukuda, Haruki Nakamura
    • Journal Title

      PLoS One

      Volume: 9 (11) Issue: 11 Pages: e112419-e112419

    • DOI

      10.1371/journal.pone.0112419

    • NAID

      120005596267

    • Peer Reviewed / Acknowledgement Compliant / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156

  • [Journal Article] Exhaustive comparison and classification of ligand-binding surfaces in proteins2013
    • Author(s)
      Murakami Y, Kinoshita K, Kinjo AR, Nakamura H
    • Journal Title

      Protein Science

      Volume: 22 Issue: 10 Pages: 1379-1391

    • DOI

      10.1002/pro.2329

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] Molecular Dynamics Simulations Accelerated by GPU for Biological Macromolecules 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. Theory Comput

      Volume: 9 Issue: 12 Pages: 5599-5609

    • DOI

      10.1021/ct400342e

    • NAID

      120005604144

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-23657103, KAKENHI-PUBLICLY-25104717, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070

  • [Journal Article] Quantum chemical study of conformational preferences in intermediates and transition states of the hydrolysis of dimethyl phosphate.2013
    • Author(s)
      Yu Takano, Makoto Kita, Haruki Nakamura, Haruki
    • Journal Title

      J. Phys. Conf. Ser.

      Volume: 454 Pages: 12058-12058

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Journal Article] LigandBox: A database for 3D structures of chemical compounds2013
    • Author(s)
      Takeshi Kawabata, Yusuke Sugihara, Yoshifumi Fukunishi, Haruki Nakamura
    • Journal Title

      BIOPHYSICS

      Volume: 9 Issue: 0 Pages: 113-121

    • DOI

      10.2142/biophysics.9.113

    • NAID

      130003366038

    • ISSN
      1349-2942
    • Language
      English
    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] Community-wide evaluation of methods forpredicting the effect of mutations on protein–protein interactions.2013
    • Author(s)
      Rocco Moretti, …, Eiji Kanamori, Yuko Tsuchiya, Haruki Nakamura, et al.
    • Journal Title

      Proteins

      Volume: 81 Issue: 11 Pages: 1980-1987

    • DOI

      10.1002/prot.24356

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Journal Article] De Novo Mutations in GNAO1, Encoding a Gαo Subunit of Heterotrimeric G Proteins, Cause Epileptic Encephalopathy.2013
    • Author(s)
      Nakamura, K., et al.,
    • Journal Title

      Am. J. Hum. Genet.

      Volume: 93 Issue: 3 Pages: 496-505

    • DOI

      10.1016/j.ajhg.2013.07.014

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23500444, KAKENHI-PROJECT-23612008, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118005, KAKENHI-PLANNED-24118007, KAKENHI-PROJECT-24249019, KAKENHI-PROJECT-24659508, KAKENHI-PROJECT-25293052, KAKENHI-PROJECT-25293085, KAKENHI-PROJECT-25293235, KAKENHI-PROJECT-25860915

  • [Journal Article] Whole genome sequencing in patients with retinitis pigmentosa reveals pathogenic DNA structural changes and NEK2 as a new disease gene2013
    • Author(s)
      Nishiguchi KM, Tearle RG, Liu YP, Oh EC, Miyake N, Benaglio P, Harper S, Koskiniemi-Kuendig H, Venturini G, Sharon D, Koenekoop RK, Nakamura M, Kondo M, Ueno S, Yasuma TR, Beckmann JS, Ikegawa S, Matsumoto N, Terasaki H, Berson EL, Katsanis N, Rivolta C
    • Journal Title

      Proc Natl Acad Sci U S A

      Volume: 110 Issue: 40 Pages: 16139-16144

    • DOI

      10.1073/pnas.1308243110

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23592603, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118007, KAKENHI-PROJECT-24249019, KAKENHI-PROJECT-25293235

  • [Journal Article] Mutational and Structural Analyses of Caldanaerobius polysaccharolyticus Man5B Reveal Novel Active Site Residues for Family 5 Glycoside Hydrolases2013
    • Author(s)
      Takuji Oyama, George E Schmitz, Dylan Dodd, Yejun Han, Alanna Burnett, Naoko Nagasawa, Roderick I Mackie, Haruki Nakamura, Kosuke Morikawa, & Isaac Cann
    • Journal Title

      PLoS ONE.

      Volume: 8 Issue: 11 Pages: e80448-e80448

    • DOI

      10.1371/journal.pone.0080448

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23247016, KAKENHI-PROJECT-23370071, KAKENHI-PROJECT-24370046

  • [Journal Article] Computational study of conformational preferences in intermediates and transition states of the hydrolysis of dimethyl phosphate2013
    • Author(s)
      Takano, Y., Kita, M., Nakamura, H.
    • Journal Title

      IOP Journal of Physics: Conference Series

      Volume: 未定

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Journal Article] A virtual-system coupled multicanonical molecular dynamics simulation : Principles and applications to free-energy landscape of protein-protein interaction with an all-atom model in explicit solvent2013
    • Author(s)
      J. Higo, K. Umezawa, H. Nakamura
    • Journal Title

      Journal of Chemical Physics

      Volume: 138 Issue: 18 Pages: 184106-184106

    • DOI

      10.1063/1.4803468

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-13J07605, KAKENHI-ORGANIZER-21113001, KAKENHI-PLANNED-21113006, KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008

  • [Journal Article] Application of zero-dipole summation method to molecular dynamics2013
    • Author(s)
      Narutoshi Kamiya
    • Journal Title

      Chem. Phys. Lett.

      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] Molecular dynamics simulations of a double-stranded DNA in an explicit solvent model with zero-dipole summation method2013
    • Author(s)
      Arakawa T, Kamiya N, Nakamura H, Fukuda I
    • Journal Title

      PLoS ONE

      Volume: 8 Issue: 10 Pages: e76606-e76606

    • DOI

      10.1371/journal.pone.0076606

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-ORGANIZER-24118001, KAKENHI-PLANNED-24118008, KAKENHI-PROJECT-25390156, KAKENHI-PROJECT-25440070

  • [Journal Article] Gas-phase structure of the histone multimers characterized by ion mobility mass spectrometry and molecular dynamics simulation2013
    • Author(s)
      Saikusa K, Fuchigami S, Takahashi K, Asano Y, Nagadoi A, Tachiwana H, Kurumizaka H, Ikeguchi M, Nishimura Y, Akashi S
    • Journal Title

      Anal Chem

      Volume: 85 Issue: 8 Pages: 4165-4171

    • DOI

      10.1021/ac400395j

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20227009, KAKENHI-ORGANIZER-21113001, KAKENHI-PLANNED-21113003, KAKENHI-PROJECT-22570120

  • [Journal Article] A virtual-system coupled multicanonical molecular dynamics simulation: Principles and applications to free-energy landscape of protein–protein interaction with an all-atom model in explicit solvent2013
    • Author(s)
      Higo, J., Umezawa, K., Nakamura, H.
    • Journal Title

      Journal of Chemical Physics

      Volume: 138

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Journal Article] GIRAF: a method for fast search and flexible alignment of ligand binding interfaces in proteins at atomic resolution2012
    • Author(s)
      Kinjo AR, Nakamura H
    • Journal Title

      BIOPHYSICS

      Volume: 8 Issue: 0 Pages: 79-94

    • DOI

      10.2142/biophysics.8.79

    • NAID

      130002061589

    • ISSN
      1349-2942
    • Language
      English
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-22770149, KAKENHI-PROJECT-23370071

  • [Journal Article] Enhanced and effective conformational sampling of protein molecular systems for their free energy landscapes2012
    • Author(s)
      Higo, J., Ikebe, J., Kamiya, N., Nakamura, H
    • Journal Title

      Biophysical Rev

      Volume: 4 Issue: 1 Pages: 27-44

    • DOI

      10.1007/s12551-011-0063-6

    • Peer Reviewed
    • Data Source
      KAKENHI-PLANNED-21113006, KAKENHI-PROJECT-22570160, KAKENHI-PROJECT-23370071

  • [Journal Article] Density functional studies of the structural variety of the Cu2S2 core of the Cu-A site2012
    • Author(s)
      Y. Takano
    • Journal Title

      International Journal of Quantum Chemistry

      Volume: 112 Issue: 24 Pages: 3756-3762

    • DOI

      10.1002/qua.24214

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-22685003, KAKENHI-PROJECT-23657103, KAKENHI-PUBLICLY-23104506

  • [Journal Article] Composite structural motifs of binding sites for delineating biological functions of proteins2012
    • Author(s)
      Kinjo AR, Nakamura H
    • Journal Title

      PLoS One

      Volume: 7 Issue: 2 Pages: e31437-e31437

    • DOI

      10.1371/journal.pone.0031437

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-22770149, KAKENHI-PROJECT-23370071

  • [Journal Article] Electron density based interaction energy estimation of the special pair in the photosynthetic reaction center2012
    • Author(s)
      Yamasaki H, Nakamura H
    • Journal Title

      Chem. Phys. Lett

      Volume: 536 Pages: 129-135

    • DOI

      10.1016/j.cplett.2012.03.087

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Journal Article] Counterbalance of ligand- and self-coupled motions characterizes multispecificity of ubiquitin2012
    • Author(s)
      Dasgupta B, Nakamura H, Kinjo AR
    • Journal Title

      Protein Science

      Volume: 22 Issue: 2 Pages: 168-178

    • DOI

      10.1002/pro.2195

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Journal Article] Functions of homo- and hetero-oligomers of human Nucleoplasmin/Nucleophosmin family proteins NPM1, NPM2, and NPM3 during sperm chromatin remodeling2012
    • Author(s)
      Okuwaki M, Sumi A, Hisaoka M, Saotome-Nakamura A, Akashi S, Nishimura Y, Nagata K
    • Journal Title

      Nucleic Acids Res

      Volume: 40 Issue: 11 Pages: 4861-4878

    • DOI

      10.1093/nar/gks162

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20227009, KAKENHI-ORGANIZER-21113001, KAKENHI-PLANNED-21113003, KAKENHI-PLANNED-21113005, KAKENHI-PROJECT-22570120, KAKENHI-PROJECT-22570132, KAKENHI-PLANNED-24115002

  • [Journal Article] Simple and Accurate Scheme to Compute Electrostatic Interactions: Zero-dipole Summation Technique for Molecular System and Application to Bulk Water.2012
    • Author(s)
      Ikuo Fukuda, Narutoshi Kamiya, Yasushige Yonezawa, Haruki Nakamura
    • Journal Title

      Journal of Chemical Physics

      Volume: 137 Issue: 5 Pages: 54314-54314

    • DOI

      10.1063/1.4739789

    • NAID

      120005647641

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-PLANNED-24118008, KAKENHI-ORGANIZER-24118001

  • [Journal Article] Conformational Ensembles of an Intrinsically Disordered Protein pKID with and without a KIX Domain in Explicit Solvent Investigated by All-Atom Multicanonical Molecular Dynamics2012
    • Author(s)
      Umezawa, K., Ikebe, J., Takano, M., Nakamura, H., Higo, J
    • Journal Title

      Biomolecules

      Volume: 2 Issue: 1 Pages: 104-121

    • DOI

      10.3390/biom2010104

    • Peer Reviewed
    • Data Source
      KAKENHI-PLANNED-21113006, KAKENHI-PROJECT-23370071

  • [Journal Article] Computer-aided antibody design.2012
    • Author(s)
      Kuroda, D., Shirai, H., Jacobson, M. P., Nakamura, H.
    • Journal Title

      Protein Engineering, Design and Selection

      Volume: 25 Issue: 10 Pages: 507-521

    • DOI

      10.1093/protein/gzs024

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Journal Article] Non-Ewald methods : Theory and Applications to Molecular Systems2012
    • Author(s)
      Fukuda I, Nakamura H
    • Journal Title

      Biophysical Reviews

      Volume: 4 Issue: 3 Pages: 161-170

    • DOI

      10.1007/s12551-012-0089-4

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-23370071, KAKENHI-PLANNED-24118008, KAKENHI-ORGANIZER-24118001

  • [Journal Article] Community-Wide Assessment of Protein-Interface Modeling Suggests Improvements to Design Methodology2011
    • Author(s)
      Fleishman SJ, 他(研究代表者含む,全96人)
    • Journal Title

      Journal of Molecular Biology

      Volume: 414 Issue: 2 Pages: 289-302

    • DOI

      10.1016/j.jmb.2011.09.031

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-11J08750, KAKENHI-PROJECT-23370071

  • [Journal Article] HitPredict : a database of quality assessed protein-protein interactions in 9 species.2011
    • Author(s)
      A.Patil, K.Nakai, H.Nakamura
    • Journal Title

      Nucl.Acids Res 39

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] Distinct roles of overlapping and non-overlapping regions of hub protein interfaces in recognition of multiple partners2011
    • Author(s)
      Dasgupta B, Nakamura H, Kinjo AR
    • Journal Title

      Journal of Molecular Biology

      Volume: 411 Issue: 3 Pages: 713-727

    • DOI

      10.1016/j.jmb.2011.06.027

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-22770149, KAKENHI-PROJECT-23370071

  • [Journal Article] Ab initio simulation of a 57-residue protein in explicit solvent reproduces the native conformation in the lowest free-energy cluster.2011
    • Author(s)
      J.Ikebe, D.M.Standley, H.Nakamura, J.Higo
    • Journal Title

      Protein Science 20

      Pages: 187-196

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] Labile electronic and spin states of the CaMn4O5 cluster in the PSII system refined to the 1.9A X-ray resolution UB3LYP computational results2011
    • Author(s)
      K. Kanda, S. Yamanaka, T. Saito, Y. Umena, K. Kawakami, J. R. Shen, N. Kamiya, M. Okumura, H. Nakamura, K. Yamaguchi
    • Journal Title

      Chem. Phys. Lett

      Volume: 506 Issue: 1-3 Pages: 98-103

    • DOI

      10.1016/j.cplett.2011.02.030

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21550014, KAKENHI-PROJECT-23550016

  • [Journal Article] Possible Mechanisms for the O-O Bond Formation in Oxygen Evolution Reaction at the CaMn4O5(H2O) 4 Cluster of PSII refined to 1.9A X-ray Resolution2011
    • Author(s)
      S. Yamanaka, H. Isobe, K. Kanda, T. Saito, Y. Umena, K. Kawakami, J. R. Shen, N. Kamiya, M. Okumura, H. Nakamura, K. Yamaguchi
    • Journal Title

      Chem. Phys. Lett

      Volume: 511 Issue: 1-3 Pages: 138-145

    • DOI

      10.1016/j.cplett.2011.06.021

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21550014, KAKENHI-PROJECT-23550016

  • [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] Free-energy Landscape for Coupled Folding and Binding of an Intrinsically Disordered Protein in Explicit Solvent from Detailed All-atom Computations2011
    • Author(s)
      Higo J, Nishimura Y, Nakamura H
    • Journal Title

      J Am Chem Soc

      Volume: 133 Issue: 27 Pages: 10448-10458

    • DOI

      10.1021/ja110338e

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20227009, KAKENHI-PLANNED-21113003, KAKENHI-PLANNED-21113006, KAKENHI-PROJECT-23370071

  • [Journal Article] Electronic structures of heme a of cytochrome c oxidase in the redox states -Roles of Propionate and Formyl Groups in Electron Transfer-2010
    • Author(s)
      Y.Takano, H.Nakamura
    • Journal Title

      Journal of Computational Chemistry 31

      Pages: 954-962

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Journal Article] Structural properties of hubs in protein-protein interaction networks.2010
    • Author(s)
      A.Patil, K.Kinoshita, H.Nakamura
    • Journal Title

      Int.J.Mol.Sci. 11

      Pages: 1930-1943

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] Geometric similarities of protein-protein interfaces at atomic resolution are only observed within homologous families : An exhaustive structural classification study.2010
    • Author(s)
      A.R.Kinjo, H.Nakamura
    • Journal Title

      J.Mol.Biol. 399

      Pages: 526-540

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] Domain distribution and intrinsic disorder in hubs in the human protein-protein interaction network.2010
    • Author(s)
      A.Patil, K.Kinoshita, H.Nakamura
    • Journal Title

      Protein Science 19

      Pages: 1461-1468

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] 光合成反応中心スペシャルペアの電子非対称性の構造的起源 量子化学計算とバイオインフォマティクスによるアプローチ2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Journal Title

      生物物理 49

      Pages: 84-85

    • NAID

      10025975513

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Journal Article] Density functional study of roles of porphyrin ring in electronic structures of heme.2009
    • Author(s)
      Y.Takano, H.Nakamura
    • Journal Title

      International Journal of Quantum Chemistry 109

      Pages: 3583-3591

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Journal Article] Classification of heterodimer interfaces using docking models and construction of scoring functions for the complex structure prediction.2009
    • Author(s)
      Y.Tsuchiya, E.Kanamori, H.Nakamura, K.Kinoshita
    • Journal Title

      Adv.Appl.Bioinfo.Chem. 2

      Pages: 79-10

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Journal Article] Resonating Broken-Symmetry Configuration Interaction Approach for Double Exchange Magnetic Systems2009
    • Author(s)
      S. Nishihara, S. Yamanaka, K. Kusakabe, K. Nakata, Y. Yonezawa, H. Nakamura, K. Yamaguchi
    • Journal Title

      J. Phys. Condens. Matter

      Volume: 21 Issue: 6 Pages: 64227-64227

    • DOI

      10.1088/0953-8984/21/6/064227

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21550014

  • [Journal Article] Classification of hetero-dimer interfaces using docking models and construction of scoring functions for the complex structure prediction2009
    • Author(s)
      Y Tsuchiya, E Kanamori, H Nakamura, K Kinoshita
    • Journal Title

      Adv. Appl. Bioinfo. Chem 2,1

      Pages: 79-100

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Classification of hetero-dimer interfaces using docking models and construction of scoring functions for the complex structure prediction2009
    • Author(s)
      Y Tsuchiya, E Kanamori, H Nakamura, K Kinoshita
    • Journal Title

      Adv.Appl.Bioinfo.Chem. 2

      Pages: 79-100

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Resonating Coupled-Cluster CI Approach to Ion-Radical Systems : Comparison with the unrestricted Coupled-Cluster Approach2009
    • Author(s)
      S. Yamanaka, S. Nishihara, K. Nakata, Y. Yonezawa, M. Okumura, T. Takada, H. Nakamura, K. Yamaguchi
    • Journal Title

      Int. J. Quant. Chem

      Volume: 109 Issue: 15 Pages: 3811-3818

    • DOI

      10.1002/qua.22441

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21550014

  • [Journal Article] Membrane attachment facilitates ligand access to active site in monoamme oxidase A.2009
    • Author(s)
      R.Apostolov, Y.Yonezawa, D.M.Standley, G.Kikugawa, Y.Takano, H.Nakamura
    • Journal Title

      Biochemistry 48

      Pages: 5864-5873

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Journal Article] Application of MDGRAPE-3, a special purpose board for molecular dynamics simulations, to periodic biomolecular systems2008
    • Author(s)
      G., Kikugawa, R., Apostolov, N., Kamiya, M., Taiji, R., Himeno, H., Nakamura, Y., Yonezawa
    • Journal Title

      Journal of Computational Chemistry 29 (in press)

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Discrimination between biological interfaces and crystal-packing contacts.2008
    • Author(s)
      Y.Tsuchiya, H.Nakamura, K.Kinoshita
    • Journal Title

      Comput.Biol.Chem. 1

      Pages: 99-113

    • 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 others2008
    • Author(s)
      N., Kamiya, Y., Yonezawa, H., Nakamura, J., Higo
    • Journal Title

      PROTEINS 70 (1)

      Pages: 41-53

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Discrimination between biological interfaces and crystal-packing contacts2008
    • Author(s)
      Y Tsuchiya, H Nakamura, K Kinoshita
    • Journal Title

      Adv. Appl. Bioinfo. Chem 1,1

      Pages: 99-113

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Discrimination between biological interfaces and crystalpacking contacts2008
    • Author(s)
      Y Tsuchiya, H Nakamura and K Kinoshita
    • Journal Title

      Compt Biol Chem 1

      Pages: 99-113

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Mutational analysis of block and facilitation of HERG current by a class III anti-arrhythmic agent, nifekalant2007
    • Author(s)
      Y Hosaka, M Iwata, N Kamiya, M Yamada, K Kinoshita, Y Fukunishi, K Tsujimae, H Hibino, Y Aizawa, A Inanobe, H Nakamura and Y Kurachi
    • Journal Title

      Channels 1

      Pages: 198-208

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape2007
    • Author(s)
      K Kinoshita, Y Murakami, H Nakamura
    • Journal Title

      Nucleic Acids Res 35

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] The role of charged surface residues in the binding ability of small hubs in protein-protein interaction networks2007
    • Author(s)
      A., Patil, H., Nakamura
    • Journal Title

      Biophysics 3 (1)

      Pages: 27-35

    • NAID

      130000091817

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] eF-seek: prediction of the functional sites of proteins by searching for similar electrostatic potential and molecular surface shape2007
    • Author(s)
      K Kinoshita, Y Murakami and H Nakamura
    • Journal Title

      Nucleic Acids Res 35

      Pages: 398-402

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Conformational sampling of a 40-residue protein consisting of α and β secondary-structure elements in explicit solvent2007
    • Author(s)
      J., Ikebe, N., Kamiya, H., Shindo, H., Nakamura, J., Higo
    • Journal Title

      Chemical Physics Letters 443 (4-6)

      Pages: 364-368

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Docking of protein molecular surfaces with evolutionary trace analysis2007
    • Author(s)
      E Kanamori, Y Murakami, Y Tsuchiya, DM Standley, H Nakamura and K Kinoshita
    • Journal Title

      Proteins 69

      Pages: 832-838

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Docking of protein molecular surfaces with evolutionary trace analysis2007
    • Author(s)
      E Kanamori, Y Murakami, Y Tsuchiya, DM Standley, H Nakamura, K Kinoshita
    • Journal Title

      Proteins 69,4

      Pages: 832-838

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Mutational analysis of block and facilitation of HERG current by a class III anti-arrhythmic agent, nifekalant2007
    • Author(s)
      Y Hosaka, M Iwata, N Kamiya, M Yamada, K Kinoshita, Y Fukunishi, K Tsujimae, H Hibino, Y Aizawa, A Inanobe, H Nakamura, Y Kurachi
    • Journal Title

      Channels 1,1

      Pages: 198-208

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Theoretical analysis of the electronic asymmetry of the special pair in the photosynthetic reaction center : Effect of the protein environment and structural asymmetry2007
    • Author(s)
      H., Yamasaki, H., Nakamura, Y., Takano
    • Journal Title

      Chemical Physics Letters 447 (4-6)

      Pages: 324-329

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Effect of Hunter Disease mutations on molecular phenotypes of iduronate-2-sulfonate : Enzymatic activity, protein processing and structural analysis.2006
    • Author(s)
      K.Sukegawa-Hayasaka, Z.Kato, H.Nakamura, S.Tomatsu, T.Fukao, K.Kawata, T.Orii, N.Knodo
    • Journal Title

      Journal of Inherited Metabolic Disease Vol. 29

      Pages: 755-761

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Pre BI: Prediction of biological interfaces of proteins in crystals2006
    • Author(s)
      Yuko Tsuchiya, Kengo Kinoshita, Nobutoshi Ito, Haruki Nakamura,
    • Journal Title

      Nuc Acid Res, 34

    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Analyses of homo-oligomer interfaces of proteins from the complementarity of molecular surface, electrostatic potential and hydrophobicity.2006
    • Author(s)
      Y.Tsuchiya, K.Kinoshita, H.Nakamura
    • Journal Title

      Protein Engineering, Design and Screening Vol. 19, No. 9

      Pages: 421-429

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Molecular Dynamics Simulation Study on Water Associated with π-electrons of Benzene by using QM/MM Potential2006
    • Author(s)
      Y., Yonezawa, K, Nakata, T., Takada, H., Nakamura
    • Journal Title

      Chemical Physics Letters 428 (1-3)

      Pages: 73-77

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Utilization of methyl proton resonances in cross-saturation measurement for determining the interfaces of large protein-protein complexes.2006
    • Author(s)
      H.Takahashi, M.Miyazawa, Y.Ina, Y.Fukunishi, Y.MIzukoshi, H.Nakamura, I.Shimada
    • Journal Title

      Journal of Biomolecular NMR Vol. 34, No. 3

      Pages: 167-177

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Analyses of homo-oligomer interfaces of proteins from the complementarity of molecular surface, electrostatic potential and hydrophobicity2006
    • Author(s)
      Y., Tsuchiya, K., Kinoshita, H., Nakamura
    • Journal Title

      Protein Engineering, Design and Screening 19 (9)

      Pages: 421-429

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] PreBI: prediction of biological interfaces of proteins in crystals2006
    • Author(s)
      Y Tsuchiya, K Kinoshita, N Ito, H Nakamura
    • Journal Title

      Nucleic Acids Res 34

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Quantum mechanical study of the proton transfer via a peptide bond in the novel proton translocation pathway of cytochrome c oxidase.2006
    • Author(s)
      Y.Takano, H.Nakamura
    • Journal Title

      Chemical Physics Letters Vol. 430, No. 1-3

      Pages: 149-155

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Utilization of methyl proton resonances in cross-saturation measurement for determining the interfaces of large protein-protein complexes2006
    • Author(s)
      H., Takahashi, M., Miyazawa, Y., Ina, Y., Fukunishi, Y., MIzukoshi, H., Nakamura, I., Shimada
    • Journal Title

      Journal of Biomolecular NMR 34 (12)

      Pages: 167-177

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Quantum mechanical study of the proton transfer via a peptide bond in the novel proton translocation pathway of cytochrome c oxidase.2006
    • Author(s)
      Takano, Y., Nakamura, H.
    • Journal Title

      Chemical Physics Letters 430

      Pages: 149-155

    • Data Source
      KAKENHI-PROJECT-18054013

  • [Journal Article] Analyses of homo-oligomer interfaces of proteins from the complementarity of molecular surface, electrostatic potential and hydrophobicity2006
    • Author(s)
      Y Tsuchiya, K Kinoshita, H Nakamura
    • Journal Title

      Protein Eng Des Sel 19,9

      Pages: 421-429

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] PreBI : Prediction of biological interfaces of proteins in crystals.2006
    • Author(s)
      Y.Tsuchiya, K.Kinoshita, N.Ito, H.Nakamura
    • Journal Title

      Nucleic Acids Research Vol. 34, Web Service issue

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] PreBI : Prediction of biological interfaces of proteins in crystals2006
    • Author(s)
      Y., Tsuchiya, K., Kinoshita, N., Ito, H., Nakamura
    • Journal Title

      Nucleic Acids Research, 34 (Web Service issue)

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Quantum mechanical study of the proton transfer via a peptide bond in the novel proton translocation pathway of cytochrome c oxidase2006
    • Author(s)
      Y., Takano, H., Nakamura
    • Journal Title

      Chemical Physics Letters 430 (1-3)

      Pages: 149-155

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Utilization of methyl proton resonances in cross-saturation measurement for determining the interfaces of large protein-protein complexes.2006
    • Author(s)
      Takahashi, H., Miyazawa, M., Ina, Y., Fukunishi, Y., Mizukoshi, Y., Nakamura, H., Shimada, I.
    • Journal Title

      Journal of biomolecular NMR 273

      Pages: 2730-2748

    • Data Source
      KAKENHI-PROJECT-18054013

  • [Journal Article] Analysis of homo-oligomer interfaces of proteins from the complementarity of molecular surface, electrostatic potential and hydrophobicity2006
    • Author(s)
      Yuko Tsuchiya, Kengo Kinoshita, Haruki Nakamura
    • Journal Title

      Protein Eng Des Sel. 19

      Pages: 421-429

    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] PreBI : Prediction of biological interfaces of proteins in crystals.2006
    • Author(s)
      Tsuchiya, Y., Kinoshita, K., Ito, N., Nakamura, H.
    • Journal Title

      Nucleic Acids Research 34

    • Data Source
      KAKENHI-PROJECT-18054013

  • [Journal Article] Effect of Hunter Disease mutations on molecular phenotypes of iduronate-2-sulfonate : Enzymatic activity, protein processing and structural analysis2006
    • Author(s)
      K., Sukegawa-Hayasaka, Z., Kato, H., Nakamura, S., Tomatsu, T., Fukao, K., Kawata, T., Orii, N., Kondo
    • Journal Title

      Journal of Inherited Metabolic Disease 29 (6)

      Pages: 755-761

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Molecular Dynamics Simulation Study on Water Associated with π-electrons of Benzene by using QM/MM Potential.2006
    • Author(s)
      Y.Yonezawa, K, Nakata, T.Takada, H.Nakamura
    • Journal Title

      Chemical Physics Letters Vol. 428, No. 1-3

      Pages: 73-77

    • Data Source
      KAKENHI-PROJECT-18370063

  • [Journal Article] Disordered domains and high surface charge confer hubs with the ability to interact with multiple proteins in interaction networks2006
    • Author(s)
      Patil A, Nakamura H
    • Journal Title

      FEBS Letters in press

    • Data Source
      KAKENHI-PROJECT-17081003

  • [Journal Article] Molecular dynamics simulation study on water associated with π-electrons of benzene by using QM/MM potential.2006
    • Author(s)
      Yonezawa, Y., Nakata, K., Takada, T., Nakamura, H.
    • Journal Title

      Chemical Physics Letters 428

      Pages: 73-77

    • Data Source
      KAKENHI-PROJECT-18054013

  • [Journal Article] A challenge towards next-generation research infrastructure for advanced life science2004
    • Author(s)
      Nakamura, Haruki
    • Journal Title

      New Generation Comput. 22(2)

      Pages: 157-166

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-15570134

  • [Journal Article] A Challenge towards Next-Generation Research Infrastructure for Advanced Life Science2004
    • Author(s)
      Nakamura, Haruki
    • Journal Title

      New Generation Comput. vol.22 No.2

      Pages: 157-166

    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-15570134

  • [Journal Article] Molecular simulation and structure based drug design2003
    • Author(s)
      Nakamura, Haruki
    • Journal Title

      Igaku-no-Ayumi 205(7)

      Pages: 463-465

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-15570134

  • [Journal Article] 分子薬物相互作用のシミュレーションとStructure-Based Drug Design2003
    • Author(s)
      中村 春木
    • Journal Title

      医学のあゆみ vol.205 No.7

      Pages: 463-465

    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-15570134

  • [Journal Article] A Role of the Third Complementarity Determining Region in the Affinity Maturation of an Antibody.2001
    • Author(s)
      Furukawa K., Shirai H., Azuma T, Nakamura H
    • Journal Title

      J.Biol.Chem. 276

      Pages: 27622-27628

    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-12557239

  • [Journal Article] Protein Structure Databases with new web services for structural biology and biomedical research
    • Author(s)
      S Daron, A Kinjo, K Kinoshita, H Nakamura
    • Journal Title

      Brief. Bioinform (in press)

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Presentation] Prediction of complex structure and affinity between cyclin-dependent kinase 2 and its inhibitor using multicanonical molecular dynamics and thermodynamic integration simulations2018
    • Author(s)
      Gert-Jan Bekker, Narutoshi Kamiya, Mitsugu Araki, Ikuo Fukuda, Yasushi Okuno, Haruki Nakamura
    • Organizer
      The 61st annual meeting of the Biophysical Society, New Orleans (USA)
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Oct4の2つのDNA結合サブドメインを結ぶLinker領域の構造多様性2017
    • Author(s)
      速水智教、高田彰二、笠原浩太、中村春木、肥後順一
    • Organizer
      第55回日本生物物理学会年会
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Flexible docking and affinity calculation between CDK2 and its inhibitor CS3 using multicanonical MD and thermodynamic integration.2017
    • Author(s)
      Gert-Jan Bekker, Narutoshi Kamiya, Mitsugu Araki, Ikuo Fukuda, Yasushi Okuno, Haruki Nakamura
    • Organizer
      第55回日本生物物理学会年会
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Beyond Classical In-silico Drug Docking by Data Science and Molecular Simulation2017
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 15th Chinese Biophysics CongressShanghai (China)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Oct4の2つのDNA結合サブドメインを結ぶLinker領域の構造多様性2017
    • Author(s)
      速水智教、高田彰二、笠原浩太、中村春木、肥後順一
    • Organizer
      第17回日本蛋白質科学会年会
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] In-Silico Drug Development Using Data Science and Computational Chemistry2017
    • Author(s)
      Haruki Nakamura
    • Organizer
      Kickoff Meeting (JSPS Symposium) for the ZIAM/GBB and ISIR/IPR Collaboration, Groningen (Netherlands)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] ホメオドメインタンパク質によるジベレリン生合成遺伝子の転写制御機構の解析2017
    • Author(s)
      中村駿志，深澤壽太郎，高橋陽介
    • Organizer
      第74回中国四国植物学会
    • Place of Presentation
      高知大学（高知県高知市）
    • Year and Date
      2017-05-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Complex structure and Affinity of CDK2 and its Inhibitor Using McMD and TI Simulations2017
    • Author(s)
      Gert-Jan Bekker, Narutoshi Kamiya, Mitsugu Araki, Ikuo Fukuda, Yasushi Okuno, Haruki Nakamura
    • Organizer
      19th IUPAB congress, Edinburgh (U.K.)
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Flexible Docking between cyclin-dependent kinase 2 and its inhibitor CS3 using multicanonical MD and thermodynamic integration simulations.2017
    • Author(s)
      Gert-Jan Bekker, Narutoshi Kamiya, Mitsugu Araki, Ikuo Fukuda, Yasushi Okuno, Haruki Nakamura
    • Organizer
      第17回日本蛋白質科学会年会
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Enhanced Sampling for Analysis and Prediction of Protein-Ligand Interactions2017
    • Author(s)
      Haruki Nakamura
    • Organizer
      Seminar at Science for Life LaboratoryStockholm (Sweden)
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Accurate Prediction of Complex Structure and Affinity for a Flexible Protein Receptor and its Inhibitor2017
    • Author(s)
      Haruki Nakamura
    • Organizer
      The Trilateral Workshop for Frontier Protein Studies, Shanghai (China)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Accurate Prediction of Complex Structure and Affinity for a Flexible Protein Receptor and its Inhibitor2017
    • Author(s)
      Haruki Nakamura
    • Organizer
      Mini-Symposium, Astbury Centre, Leeds University (U. K.)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Non-Ewald method for accurately and efficiently calculating electrostatic interactions in molecular simulations2017
    • Author(s)
      Ikuo Fukuda, Narutoshi Kamiya, Kota Kasahara, Han Wang, Shun Sakuraba, Haruki Nakamura
    • Organizer
      “Conformational Ensembles from Experimental Data and Computer Simulations” meeting sponsored by the Biophysical Society
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [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-ORGANIZER-24118001

  • [Presentation] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      21st Biophysics Conference
    • Place of Presentation
      Hsinchu (Taiwan)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Molecular mechanism for modulation of a multiple transcription factor complex formed on enhancer site up on phosphorylation2016
    • Author(s)
      Ogata K, Shiina M, Kasahara K, Higo J, Hamada K, Nakamura H
    • Organizer
      5th International Conference and Exhibition on Metabolomics
    • Place of Presentation
      ハイアットリージェンシー大阪（大阪府大阪市）
    • Year and Date
      2016-05-16
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational Approaches to Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Japan-Slovenia JSPS Bilateral scientific exchange
    • Place of Presentation
      Koper (Slovenia)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      21st Biophysics Conference
    • Place of Presentation
      Hsinchu (台湾)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Oct4の2つのDNA結合サブドメインを結ぶ柔軟なlinker領域の自由エネルギー地形2016
    • Author(s)
      速水 智教、高田 彰二、中村 春木、肥後 順一
    • 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] Computational Approaches to Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Japan-Slovenia JSPS Bilateral scientific exchange
    • Place of Presentation
      Koper（スロベニア）
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] New Methods for Structure Guided Drug Development2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      JCUP VII
    • Place of Presentation
      大手町サンスカイルーム朝日生命大手町ビル（東京都、千代田区）
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 天然変性領域の過渡的な相互作用による転写制御の分子機構2016
    • Author(s)
      笠原 浩太、椎名 政昭、肥後 順一、緒方 一博、中村 春木
    • 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] 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 Approaches to Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Japan-Slovenia JSPS Bilateral scientific exchange
    • Place of Presentation
      Koper (Slovenia)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] BigData to Knowledge to Wisdom2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Data Sharing Symposium
    • Place of Presentation
      一橋大学一橋講堂（東京都千代田区）
    • Year and Date
      2016-02-29
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 計算・情報科学による 転写サイクルにおける情報変換機構の解明2016
    • Author(s)
      笠原 浩太、Neetha Mohan、中村 春木
    • Organizer
      転写サイクル合同班会議2016
    • Place of Presentation
      松島一の坊（宮城県宮城郡松島町）
    • Year and Date
      2016-09-05
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] p53 C末端ドメインのアセチル化およびヒスチジンの荷電状態の変化がその立体構造集団に及ぼす影響2016
    • Author(s)
      飯田 慎仁, 牟田 寛弥, 後藤 祐児, 北條 裕信, 中村 春木, 肥後 順一
    • 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-ORGANIZER-24118001

  • [Presentation] Computational approaches to analyze and predict protein-protein interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      IPR International Workshop
    • Place of Presentation
      大阪大学蛋白質研究所 (大阪府)
    • Year and Date
      2016-02-02
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Oct4の2つのDNA結合サブドメインを結ぶ柔軟なlinker領域の自由エネルギー地形2016
    • Author(s)
      速水 智教、高田 彰二、中村 春木、肥後 順一
    • 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-ORGANIZER-24118001

  • [Presentation] Insights Derived from Molecular Dynamics Simulations into the Subunit Assembly and Clamp Motions of Thermococcus kodakarensis RNA Polymerase2016
    • Author(s)
      Neetha Mohan, Kota Kasahara, Akira Hirata, 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] Insights Derived from Molecular Dynamics Simulations into the Subunit Assembly and Clamp Motions of Thermococcus kodakarensis RNA Polymerase2016
    • Author(s)
      Neetha Mohan, Kota Kasahara, Akira Hirata, 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-ORGANIZER-24118001

  • [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] New Methods for Structure Guided Drug Development2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      JCUP VII
    • Place of Presentation
      大手町サンスカイルーム朝日生命大手町ビル(東京都千代田区)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Oct4の2つのDNA結合サブドメインを結ぶ柔軟なlinker領域の自由エネルギー地形2016
    • Author(s)
      速水智教、高田彰二、中村春木、肥後順一
    • 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-16K14711

  • [Presentation] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 11th International Symposium of the Protein Society of Thailand
    • Place of Presentation
      Bangkok (タイ)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 天然変性領域の過渡的な相互作用による転写制御の分子機構2016
    • Author(s)
      笠原 浩太、椎名 政昭、肥後 順一、緒方 一博、中村 春木
    • 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-ORGANIZER-24118001

  • [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] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 11th International Symposium of the Protein Society of Thailand
    • Place of Presentation
      Bangkok (Thailand)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-16K14711

  • [Presentation] Molecular behavior of a higher-order complex of multiple transcription factors on enhancer site upon phosphorylation2016
    • Author(s)
      Ogata K, Shiina M, Kasahara K, Higo J, Hamada K, Nakamura H
    • Organizer
      6th International Conference on Structural Biology (Structural Biology 2016)
    • Place of Presentation
      Hilton New Orleans Airport Hotel (米国ルイジアナ州)
    • Year and Date
      2016-08-22
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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-PROJECT-16K14711

  • [Presentation] 零多重極子和法による静電相互作用計算: 理論と実際2016
    • Author(s)
      福田育夫，神谷成敏，笠原浩太，寺田透，Han Wang，桜庭俊，中村春木
    • Organizer
      日本物理学会第71回年次大会
    • Place of Presentation
      東北学院大学
    • Year and Date
      2016-03-19
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] BigData to Knowledge to Wisdom2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Data Sharing Symposium
    • Place of Presentation
      一橋講堂（東京）
    • Year and Date
      2016-02-29
    • Invited / Int'l Joint Research
    • 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-ORGANIZER-24118001

  • [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-ORGANIZER-24118001

  • [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-PROJECT-16K14711

  • [Presentation] Computational analysis on electrostatic properties of protein and Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Asia Pacific Protein Association (APPA), IPR International Seminar
    • Place of Presentation
      大阪大学蛋白質研究所(大阪府吹田市)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 11th International Symposium of the Protein Society of Thailand
    • Place of Presentation
      Bangkok (Thailand)
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [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-ORGANIZER-24118001

  • [Presentation] 計算・情報科学による 転写サイクルにおける情報変換機構の解明2016
    • Author(s)
      笠原 浩太、Neetha Mohan、中村 春木
    • Organizer
      転写サイクル合同班会議2016
    • Place of Presentation
      松島一の坊(宮城県宮城郡)
    • Year and Date
      2016-09-05
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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] Computational analysis on electrostatic properties of protein and Protein-Protein Interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      Asia Pacific Protein Association (APPA), IPR International Seminar
    • Place of Presentation
      大阪大学蛋白質研究所（大阪府、吹田市）
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 転写因子Ets1の天然変性領域のリン酸化によるDNA結合制御機構の速度論的解析2016
    • Author(s)
      椎名政昭，笠原浩太，肥後順一，馬場しほ，内山晃子，岡田千佳子，浜田恵輔，佐藤 光，中村春木，緒方一博
    • Organizer
      第39回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜 (神奈川県横浜市)
    • Year and Date
      2016-11-30
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational approaches to analyze and predict protein-protein interactions2016
    • Author(s)
      Haruki Nakamura
    • Organizer
      IPR International Workshop
    • Place of Presentation
      大阪大学蛋白質研究所 (大阪府吹田市)
    • Year and Date
      2016-02-02
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] p53 C末端ドメインのアセチル化およびヒスチジンの荷電状態の変化がその立体構造集団に及ぼす影響2016
    • Author(s)
      飯田 慎仁, 牟田 寛弥, 後藤 祐児, 北條 裕信, 中村 春木, 肥後 順一
    • 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] 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] 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] ヘムの構造歪みが酸化還元電位に与える影響の計算科学的研究2015
    • Author(s)
      今田康博, 中村春木, 鷹野優
    • 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] 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 低解像度密度マップへの複数のサブユニットのあてはめ計算-実験情報による拘束の利用-2015
    • Author(s)
      川端猛, 鈴木博文, 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] EMDBとPDBを対象とした形状類似性検索：Omokage検索2015
    • Author(s)
      鈴木博文, 川端猛, 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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Prediction of protein-protein and protein-ligand interactions, and application to drug discovery2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 9th Asian Biophysics Association Symposium (ABA2015
    • Place of Presentation
      Hangzhou, China
    • Year and Date
      2015-05-10
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Molecular Tailoring Approachによるタンパク質の二次構造に働く相互作用の量子化学的解析2015
    • Author(s)
      鷹野優, 草鹿あゆみ, 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] ヘムの構造歪みが酸化還元電位に与える影響の計算科学的研究2015
    • Author(s)
      今田康博, 中村春木, 鷹野優
    • Organizer
      第15回日本蛋白質科学会年会
    • Place of Presentation
      あわぎんホール（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] On the convergence of binding free-energy landscape calculation by improved virtual-system coupled adaptive umbrella sampling2015
    • Author(s)
      Bhaskar Dasgupta, 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational approach to find a specific interaction among many IDR relating fuzzy complexes2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Symposium on Structure and Folding of Disease Related Proteins
    • Place of Presentation
      ソウル（韓国）
    • Year and Date
      2015-12-04
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] EMDBとPDBデータの形状類似検索：Omokage検索2015
    • Author(s)
      鈴木博文, 川端猛, 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] 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] ヘムの構造歪みが酸化還元電位に与える影響の計算科学的研究2015
    • Author(s)
      今田康博, 中村春木, 鷹野優
    • 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] 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] Kinetic characterization of a DNA binding activity of the transcription factor Ets1 and its regulation by phosphorylation in an intrinsically disordered region2015
    • Author(s)
      Shiina M, Kasahara K, Higo J, Baba S, Hamada K, Uchiyama A, Suzuki K, Sato K, Nakamura H, Ogata K
    • Organizer
      BMB2015（第38回日本分子生物学会年会、第88回日本生化学会大会 合同大会）
    • Place of Presentation
      神戸ポートアイランド（兵庫県神戸市）
    • Year and Date
      2015-12-01
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular Tailoring Approach法による蛋白質二次構造内に働く相互作用の量子化学的研究2015
    • Author(s)
      草鹿あゆみ, 中村春木, 鷹野優
    • 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] EMDBとPDBを対象とした形状類似性検索：Omokage検索2015
    • Author(s)
      鈴木博文, 川端猛, 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] 転写因子Ets1とパートナー転写因子の協調的結合によるDNA結合活性制御機構の計算科学的検討2015
    • Author(s)
      笠原浩太, 福田育夫, 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] Novel non-Ewald methods for calculating electrostatic interactions in molecular simulations2015
    • Author(s)
      Ikuo Fukuda, Narutoshi Kamiya, Han Wang, Kota Kasahara, Haruki Nakamura
    • Organizer
      第53回日本生物物理学会年会
    • Place of Presentation
      ,金沢大学
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] Computational analysis on electrostatic properties of proteins and their assembly2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      The first trilateral workshop for frontier protein studies
    • Place of Presentation
      北京（中国）
    • Year and Date
      2015-04-23
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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] A specific interaction among many fuzzy complexes regulated by phosphorylation: Molecular simulation approach2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      RSC/IPR Joint Symposium “Protein Structure and Function”
    • Place of Presentation
      Australian National University (Canberra)
    • Year and Date
      2015-11-14
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 転写因子Ets1とパートナー転写因子の協調的結合によるDNA結合活性制御機構の計算科学的検討2015
    • Author(s)
      笠原浩太, 福田育夫, 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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] On the convergence of binding free-energy landscape calculation by improved virtual-system coupled adaptive umbrella sampling2015
    • Author(s)
      Bhaskar Dasgupta, 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] 転写因子Ets1天然変性領域のリン酸化によるDNA認識阻害メカニズムの検討2015
    • Author(s)
      笠原浩太、肥後順一、椎名政昭、緒方一博、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] 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] A specific interaction among many fuzzy complexes regulated by phosphorylation: Molecular simulation approach2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      RSC/IPR Joint Symposium “Protein Structure and Function”
    • Place of Presentation
      キャンベラ（オーストラリア）
    • Year and Date
      2015-11-14
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Prediction of protein-protein and protein-ligand interactions, and application to drug discovery2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 9th Asian Biophysics Association Symposium (ABA2015)
    • Place of Presentation
      瀋陽（中国）
    • Year and Date
      2015-05-10
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 天然変性領域であるp53C末端ドメインの構造と物性にアセチル化が及ぼす影響2015
    • Author(s)
      飯田慎仁, 北條裕信, 中村春木, 肥後順一
    • 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] 低解像度密度マップへの複数のサブユニットのあてはめ計算-実験情報による拘束の利用-2015
    • Author(s)
      川端猛, 鈴木博文, 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 分子シミュレーションから解き明かす転写因子Ets1のDNA結合調節機構2015
    • Author(s)
      笠原浩太、Neetha Mohan、肥後順一、福田育夫、中村春木
    • Organizer
      転写サイクル合同班会議2015
    • Place of Presentation
      ホテル暖香園（静岡県伊東市）
    • Year and Date
      2015-08-03
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Interaction of two subunits of D/L hetero dimer with catalytic subunits in archaeal RNA polymerase: Insights from MD simulations2015
    • Author(s)
      Neetha Mohan, 笠原浩太、平田章、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] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      19th KPPS (Korean Peptide Protein Symposium) Symposium
    • Place of Presentation
      Resom Ocean Castle Resort, Korea
    • Year and Date
      2015-07-07
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Molecular Tailoring Approach法による蛋白質二次構造内に働く相互作用の量子化学的研究2015
    • Author(s)
      草鹿あゆみ, 中村春木, 鷹野優
    • 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] HOMCOSサーバを用いた複合体立体構造の進化的保存性の解析2015
    • Author(s)
      川端猛, 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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 転写因子Ets1天然変性領域のリン酸化によるDNA認識阻害メカニズムの検討2015
    • Author(s)
      笠原浩太、肥後順一、椎名政昭、緒方一博、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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Development and application of novel non-Ewald methods for calculating electrostatic interactions in molecular simulations2015
    • Author(s)
      Ikuo Fukuda, Narutoshi Kamiya, Han Wang, Kota Kasahara, Haruki Nakamura
    • Organizer
      29th Annual Symposium of The Protein Society
    • Place of Presentation
      Barcelona, Spain
    • Year and Date
      2015-07-22
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] ヘムの構造歪みが酸化還元電位に与える影響の計算科学的研究2015
    • Author(s)
      今田康博, 中村春木, 鷹野優
    • 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Interaction of two subunits of D/L hetero dimer with catalytic subunits in archaeal RNA polymerase: Insights from MD simulations2015
    • Author(s)
      Neetha Mohan, 笠原浩太、平田章、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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational approach to find a specific interaction among many IDR relating fuzzy complexes2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Symposium on Structure and Folding of Disease Related Proteins
    • Place of Presentation
      Seoul National University (韓国)
    • Year and Date
      2015-12-04
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-PLANNED-24118008

  • [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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational Approaches to Coupled Folding and Binding in Protein-Protein Interactions2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      19th KPPS (Korean Peptide Protein Symposium) Symposium
    • Place of Presentation
      泰安郡（韓国）
    • Year and Date
      2015-07-07
    • Invited / Int'l Joint Research
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 分子シミュレーションから解き明かす転写因子Ets1のDNA結合調節機構2015
    • Author(s)
      笠原浩太、Neetha Mohan、肥後順一、福田育夫、中村春木
    • Organizer
      転写サイクル合同班会議2015
    • Place of Presentation
      ホテル暖香園（静岡県伊東市）
    • Year and Date
      2015-08-03
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 天然変性領域であるp53C末端ドメインの構造と物性にアセチル化が及ぼす影響2015
    • Author(s)
      飯田慎仁, 北條裕信, 中村春木, 肥後順一
    • 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular Tailoring Approachによるタンパク質の二次構造に働く相互作用の量子化学的解析2015
    • Author(s)
      鷹野優, 草鹿あゆみ, 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（徳島県徳島市）
    • Year and Date
      2015-06-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular Mechanism of Inhibition of Transcription Factor Ets1-DNA Binding, Induced by Phosphorylation on a Disordered Region2015
    • Author(s)
      Kasahara Kota, Higo Junichi, Shiina Masaaki, Fukuda Ikuo, Ogata Kazuhiro, Nakamura Haruki
    • Organizer
      第53回日本生物物理学会年会
    • Place of Presentation
      金沢大学
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] HOMCOSサーバを用いた複合体立体構造の進化的保存性の解析2015
    • Author(s)
      川端猛, 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] EMDBとPDBデータの形状類似検索：Omokage検索2015
    • Author(s)
      鈴木博文, 川端猛, 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（石川県金沢市）
    • Year and Date
      2015-09-13
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational analysis on electrostatic properties of proteins and their assembly.2015
    • Author(s)
      Haruki Nakamura
    • Organizer
      The first trilateral workshop for frontier protein studies
    • Place of Presentation
      Peking University, China
    • Year and Date
      2015-04-23
    • Invited / Int'l Joint Research
    • 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（北海道札幌市）
    • Year and Date
      2014-09-26
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] New Approach to Electrostatic Properties of Proteins and Protein-Protein Interactions2014
    • Author(s)
      Nakamura H
    • Organizer
      The 4th Asia Pacific Protein Association (APPA) Conference
    • Place of Presentation
      ICC Jeju, Korea
    • Year and Date
      2014-05-18
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Molecular dynamics study on enhancer recognitions by cooperative binding of Ets1 and partner transcription factors2014
    • Author(s)
      Kota Kasahara, Ikuo Fukuda, Haruki Nakamura
    • Organizer
      The 4th Asia Pacific Protein Association (APPA 2014)
    • Place of Presentation
      ICC Jeju, Korea
    • Year and Date
      2014-05-18
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 蛋白質の二次構造形成に関わる相互作用に関する理論的研究2014
    • Author(s)
      鷹野優、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（神奈川県横浜市）
    • Year and Date
      2014-06-25
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（北海道札幌市）
    • Year and Date
      2014-09-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular dynamics study on cooperative binding of Ets1 and partner transcription factors on regulatory elements2014
    • Author(s)
      Kota Kasahara, Ikuo Fukuda, 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（北海道札幌市）
    • Year and Date
      2014-09-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Segmentation & fitting algorithm for multiple submit fitting into a low resolution density map2014
    • Author(s)
      Takeshi Kawabata, Hirofumi Suzuki, 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（北海道札幌市）
    • Year and Date
      2014-09-27
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Free-energy landscape of the C-terminal negative regulatory domain of p532014
    • Author(s)
      Sinji Iida, Haruki Nakamura, Junichi Higo
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      ワークピア横浜、横浜市
    • Year and Date
      2014-06-25
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 分子動力学シミュレーション解析のためのMulti-modal Dynamic Cross Correlation法の開発と応用2014
    • Author(s)
      笠原浩太、福田育夫、中村春木
    • Organizer
      第3回生命医薬情報学連合大会
    • Place of Presentation
      仙台国際センター（宮城県仙台市）
    • Year and Date
      2014-10-02
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 分子動力学法に基づいた新しい動的相関解析手法の開発と転写因子Ets-1-DNA結合機構解析への応用2014
    • Author(s)
      笠原浩太、福田育夫、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（神奈川県横浜市）
    • Year and Date
      2014-06-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 分子動力学法に基づいた新しい動的相関解析手法の開発と転写因子Ets-1-DNA結合機構解析への応用2014
    • Author(s)
      笠原浩太、福田育夫、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、横浜市
    • Year and Date
      2014-06-25
    • 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] Density functional study of local and nonlocal molecular interactions in secondary structure2014
    • Author(s)
      Takano Y, Nakamura H
    • Organizer
      54th Sanibel Symposium
    • Place of Presentation
      The King and Prince Golf & Beach Resort, Georgia, USA
    • Year and Date
      2014-02-18
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] New Approach to Electrostatic Properties of Proteins and Protein-Protein Interactions2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 4th Asia Pacific Protein Association (APPA 2014)
    • Place of Presentation
      済州島（韓国）
    • Year and Date
      2014-05-18
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Zero-multipole summation法による効率的静電相互作用計算2014
    • Author(s)
      福田 育夫, 神谷成敏，中村春木
    • Organizer
      日本物理学会第69回年次大会
    • Place of Presentation
      東海大学 湘南キャンパス
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] New Approach to Electrostatic Properties of Proteins and Protein-Protein Interactions2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 4th Asia Pacific Protein Association (APPA 2014) （Plenary Lecture)
    • Place of Presentation
      ICC Jeju, Korea
    • Year and Date
      2014-05-18
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 転写因子Ets1のDNA結合制御に関する分子シミュレーション研究2014
    • Author(s)
      笠原 浩太，福田 育夫，中村 春木
    • Organizer
      冬の若手ワークショップ2014
    • Place of Presentation
      舌切雀のお宿 磯部ガーデン（群馬県）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Free-energy landscape of the C-terminal negative regulatory domain of p532014
    • Author(s)
      Sinji Iida, Haruki Nakamura, Junichi Higo
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      ワークピア横浜（神奈川県横浜市）
    • Year and Date
      2014-06-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Theoretical analysis of molecular interactions in secondary structures of proteins2014
    • Author(s)
      Yu Takano, Ayumi Kusaka, 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（北海道札幌市）
    • Year and Date
      2014-09-27
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational study of the electronic structures of hemes in cytochrome c32014
    • Author(s)
      Yasuhiro Imada, Haruki Nakamura, Yu Takano
    • 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（北海道札幌市）
    • Year and Date
      2014-09-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] A new non-Ewald scheme for molecular dynamics simulation and its application to a free energy landscape for protein-protein interaction.2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      2nd International Conference on Computational Science and Engineering (ICCSE 2014)
    • Place of Presentation
      Ho Chi Minh, Vietnam
    • Year and Date
      2014-08-23
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] fkcombu：2D-MCSを用いた鋳型ベースの低分子化合物ドッキング法の開発2014
    • Author(s)
      川端猛、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（神奈川県横浜市）
    • Year and Date
      2014-06-27
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular dynamics study on enhancer recognitions by cooperative binding of Ets1 and partner transcription factors2014
    • Author(s)
      笠原浩太、福田育夫、中村春木
    • Organizer
      The 4th Asia Pacific Protein Association (APPA 2014)
    • Place of Presentation
      済州島（韓国）
    • Year and Date
      2014-05-18
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] New Non-Ewald Scheme for Molecular Dynamics Simulation and Application to Free Energy Calculation2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      Bioinformatics in Torun 2014 (BIT14)
    • Place of Presentation
      Torun(Poland)
    • Year and Date
      2014-06-12
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Free-energy landscape of C-terminal negative regulatory domain of p532014
    • Author(s)
      Shinji Iida, Haruki Nakamura, Junini Higo
    • 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（北海道札幌市）
    • Year and Date
      2014-09-25
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Transcriptome analysis of red seabream (Pagrus major) embryos treated with 2,3,7,8-tetrachlorodibenzo-p-dioxin (TCDD)2014
    • Author(s)
      M. Iida, S. Fujii, M. Uchida, H. Nakamura, Y. Kagami, S.M. Bak, E.Y. Kim, Y. Shima, H. Iwata
    • Organizer
      Society of Toxicology
    • Place of Presentation
      Phoenix Convention Center（米国アリゾナ州）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Density functional study of molecular interactions in secondary structures of proteins2014
    • Author(s)
      Takano Y, Nakamura H
    • Organizer
      The 4th Asia Pacific Protein Association (APPA) Conference
    • Place of Presentation
      ICC Jeju, Korea
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] Cytochrome c3中のヘムの電子構造制御に関する計算科学的研究2014
    • Author(s)
      今田康博、中村春木、鷹野優
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      ワークピア横浜（神奈川県横浜市）
    • Year and Date
      2014-06-26
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] A new non-Ewald scheme for molecular dynamics simulation and its application to a free energy landscape for protein-protein interaction2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      2nd International Conference on Computational Science and Engineering (ICCSE 2014)
    • Place of Presentation
      ホーチミン（ベトナム）
    • Year and Date
      2014-08-23
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular dynamics study on cooperative binding of Ets1 and partner transcription factors on regulatory elements2014
    • Author(s)
      Kota Kasahara, Ikuo Fukuda, 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] Free-energy landscape of C-terminal negative regulatory domain of p532014
    • Author(s)
      Shinji Iida, Haruki Nakamura, Junini Higo
    • 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] 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] 抗原抗体ドッキングのデコイセット評価法2014
    • 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（神奈川県横浜市）
    • Year and Date
      2014-06-26
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 二次構造形成に関する局所および非局所相互作用に関する計算化学的研究2014
    • Author(s)
      鷹野 優, 中村 春木
    • Organizer
      スーパーコンピュータ・ワークショップ2013
    • Place of Presentation
      自然科学研究機構・岡崎コンファレンスセンター(岡崎市)
    • Year and Date
      2014-01-21
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] New Non-Ewald Scheme for Molecular Dynamics Simulation and Application to Free Energy Calculation2014
    • Author(s)
      Haruki Nakamura
    • Organizer
      Bioinformatics in Torun 2014 (BIT14)
    • Place of Presentation
      Torun, Poland
    • Year and Date
      2014-06-12
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] The zero-dipole summation method and its application to molecular simulation with homogenous and inhomogeneous systems2013
    • 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（千葉県）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（USA）
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Prediction of Protein-Protein Interactions: Structural Approaches.2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 2nd HD Physiology International Symposium
    • Place of Presentation
      丸の内MY PLAZAホール（東京）
    • Year and Date
      2013-06-28
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] GPUを利用したZero-dipole summation法による静電相互作用計算の高速化2013
    • Author(s)
      中村春木
    • 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（東京）
    • Year and Date
      2013-01-15
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] New Approaches to Dynamic Properties of Proteins and their Applications to Drug Discover of GPCR2013
    • Author(s)
      Nakamura H
    • Organizer
      CADD'13
    • Place of Presentation
      Institut Teknologi Bandung, Bandung, Indonesia
    • Year and Date
      2013-12-12
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Quantum chemical study of intra- and inter- molecular interactions in secondary structures2013
    • Author(s)
      鷹野 優, 中村 春木
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都国際会議場(京都市)
    • Year and Date
      2013-10-28
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] Gene Expression Changes Exposed to 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) in Early Developmental Stage Embryos of Red Seabream (Pagrus major)2013
    • Author(s)
      M. Iida, Y. Murakami, Y. Shima, H. Nakamura, Y. Kagami, S. Fujii, A. Srai, H. Iwata
    • Organizer
      転写サイクル合同班会議
    • Place of Presentation
      ホテルおかだ（神奈川県）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（京都市）
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] A new non-Ewald scheme : The zero-dipole summation method and its applications to molecular dynamics simulations for homogeneous and inhomogeneous biomolecular systems2013
    • Author(s)
      Nakamura H
    • Organizer
      National Symposium on Frontiers of Biophysics, Biotechnology & Bioinformatics and 37'th Annual Meeting of Indian Biophysical Society
    • Place of Presentation
      University of Mumbai, India
    • Year and Date
      2013-01-14
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] The zero-dipole summation method and its application to molecular simulation with homogenous and inhomogeneous systems2013
    • 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）
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Free-energy Landscape of Coupled Folding and Binding of IDP-partner Systems in an Explicit Solvent Investigated by All-atom Multicanonical Molecular Dynamics2013
    • Author(s)
      Junichi Higo, Koji Umezawa, Haruki Nakamura
    • Organizer
      Protein Society the 27th Annual Symposium
    • Place of Presentation
      Boston Marriott, Boston, USA
    • Data Source
      KAKENHI-PROJECT-23370071

  • [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] Theoretical study of local- and nonlocal-molecular interactions in secondary structures2013
    • Author(s)
      Yu Takano, Haruki Nakamura
    • Organizer
      5th JCS (Japan, Czech, Slovakia) International Symposium on Theoretical Chemistry
    • Place of Presentation
      東大寺総合文化センター（奈良市）
    • Invited
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] The zero-dipole summation method and its application to molecular simulation with homogenous and inhomogeneous systems2013
    • Author(s)
      Ikuo Fukuda, Narutoshi Kamiya, Kota Kasahara, Haruki Nakamura
    • Organizer
      APPC12 The 12th Asia Pacific Physics Conference of AAPPS, ASEPS3 The third Asia-Europe Physics Summit
    • Place of Presentation
      International Conference Halls, Makuhari Messe Chiba, Japan
    • Data Source
      KAKENHI-PROJECT-25390156

  • [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（京都府）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Theoretical study of local- and nonlocal- molecular interactions in secondary structures2013
    • Author(s)
      Takano Y, Nakamura H
    • Organizer
      5th JCS (Japan, Czech, Slovakia) International Symposium on Theoretical Chemistry
    • Place of Presentation
      東大寺総合文化センター(奈良市)
    • Invited
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] Computational protein science: structural bioinformatics and molecular simulations2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      CDAST symposium
    • Place of Presentation
      Jember University（インドネシア・ジャワ）
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Prediction of Protein-Protein Interactions: Structural Approaches2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 2nd HD Physiology International Symposium
    • Place of Presentation
      丸の内MY PLAZAホール（東京都）
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational Prediction and Analysis of Protein-Protein Interactions: Qualitative and Quantitative Approaches2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      Special Seminar at Academia Sinica
    • Place of Presentation
      Academia Sinica, Shanghai
    • Year and Date
      2013-01-18
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] ゲノム情報(1D)から蛋白質の動的構造情報(4D)へ2013
    • Author(s)
      中村春木
    • Organizer
      日本学術会議公開シンポジウム
    • Place of Presentation
      日本学術会議講堂(東京)
    • Year and Date
      2013-09-17
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Towards quantitative analysis and prediction of protein-protein interactions2013
    • Author(s)
      Nakamura H
    • Organizer
      5th JCS (Japan, Czech, Slovakia) International Symposium on Theoretical Chemistry
    • Place of Presentation
      東大寺総合文化センター(奈良市)
    • Year and Date
      2013-12-03
    • Invited
    • Data Source
      KAKENHI-PROJECT-23657103

  • [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] ゲノム情報（1D）から蛋白質の動的構造情報（4D）へ2013
    • Author(s)
      中村 春木
    • Organizer
      日本学術会議公開シンポジウム
    • Place of Presentation
      日本学術会議講堂（東京都）
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] TCDD曝露したマダイ胚のトランスクリプトーム解析2013
    • Author(s)
      飯田 緑, 藤井 聡, 内田 雅也, 中村 浩, 鏡 良弘, Bak, Su-Min, 金　恩英, 島 康洋, 岩田久人
    • Organizer
      日本内分泌撹乱化学物質学会
    • Place of Presentation
      東京大学（東京都）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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（鳥取県）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] 生命科学における情報科学・計算科学2013
    • Author(s)
      中村春木
    • Organizer
      第6回三大学連携シンポジウム
    • Place of Presentation
      神戸大学統合研究拠点
    • Year and Date
      2013-02-22
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Drug Development for a GPCR with in-silico screening2013
    • Author(s)
      Nakamura H
    • Organizer
      Nagoya symposium : Frontiers in Structural Physiology
    • Place of Presentation
      名古屋大学豊田講堂
    • Year and Date
      2013-01-24
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Zero-dipole summation method for evaluating electrostatic 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
      京都国際会館
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] New Approaches to Dynamic Properties of Proteins and their Applications to Drug Discover of GPCR.2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      CADD’13
    • Place of Presentation
      Institut Teknologi Bandung, Indonesia
    • Year and Date
      2013-12-12
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Prediction of protein-protein complex structures2013
    • Author(s)
      Nakamura H
    • Organizer
      International Conference on Biomolecular Forms and Functions
    • Place of Presentation
      Indian Institute of Science Bangalore, India
    • Year and Date
      2013-01-10
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [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] Prediction of protein-protein complex structures2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Biomolecular Forms and Functions
    • Place of Presentation
      Indian Institute of Science Bangalore, India
    • Year and Date
      2013-01-10
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Drug Development for a GPCR with in-silico screening2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      Nagoya Symposium, Frontiers in Structural Physiology
    • Place of Presentation
      名古屋大学（愛知）
    • Year and Date
      2013-01-24
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Computational Protein Science: Structural Bioinformatics and Molecular Simulations2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      CDAST symposium
    • Place of Presentation
      Jember University, Indonesia
    • Year and Date
      2013-12-14
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] New approaches to dynamic properties of proteins and their applications to drug discovery of GPCR2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      CADD’13
    • Place of Presentation
      Institut Teknologi Bandung（インドネシア・バンドン）
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [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, Copley Place（米国マサチューセッツ州）
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] A new non-Ewald scheme: The zero-dipole summation method and its applications to molecular dynamics simulations for homogeneous and inhomogeneous biomolecular systems2013
    • Author(s)
      Haruki Nakamura
    • Organizer
      National Symposium on Frontiers of Biophysics, Biotechnology Bioinformatics and 37'th Annual Meeting of Indian Biophysical Society
    • Place of Presentation
      University of Mumbai, India
    • Year and Date
      2013-01-14
    • Invited
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] ゲノム情報（1D）から蛋白質の動的構造情報（4D）へ2013
    • Author(s)
      中村 春木
    • Organizer
      日本学術会議公開シンポジウム
    • Place of Presentation
      日本学術会議講堂（東京）
    • Year and Date
      2013-09-17
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] GPUを利用したZero-dipole summation法をによる静電相互作用の高速計算2012
    • Author(s)
      中村　春木
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      名古屋国際会議場
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Prediction of protein-protein complex structures2012
    • Author(s)
      Nakamura, H.
    • Organizer
      International Conference on Biomolecular Forms and Functions
    • Place of Presentation
      Indian Institute of Science, Bangalore, India
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] A new non-Ewald scheme: The zero-dipole summation method and its applications to molecular dynamics simulations for homogeneous and inhomogeneous biomolecular systems2012
    • Author(s)
      Nakamura, H.
    • Organizer
      National Symposium on Frontiers of Biophysics, Biotechnology & Bioinformatics and 37'th Annual Meeting of Indian Biophysical Society
    • Place of Presentation
      University of Mumbai, Mumbai, India
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Computational Prediction and Analysis of Protein-Protein Interactions: Qualitative and Quantitative Approaches2012
    • Author(s)
      Nakamura, H.
    • Organizer
      Special Seminar at Academia Sinica
    • Place of Presentation
      Academia Sinica, Shanghai, China
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Atoms in molecules 法によるタンパク質α へリックス, β シートの水素結合相互作用の理論解析2012
    • Author(s)
      山崎 秀樹, 中村 春木
    • 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(名古屋市)
    • Data Source
      KAKENHI-PROJECT-23657103

  • [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] 蛋白質の自由エネルギー地形2012
    • Author(s)
      中村春木
    • Organizer
      スーパーコンピュータ・ワークショップ2012
    • Place of Presentation
      自然科学研究機構・岡崎コンファレンスセンター
    • Year and Date
      2012-01-25
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Drug Development for a GPCR with in-silico screening2012
    • Author(s)
      Nakamura, H.
    • Organizer
      Nagoya Symposium
    • Place of Presentation
      名古屋大学 豊田講堂
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Molecular Dynamics Simulations of Ets1-DNA complexes using Zero-Dipole Summation Method2012
    • Author(s)
      中村 春木
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      名古屋大学(愛知）
    • Year and Date
      2012-09-24
    • Data Source
      KAKENHI-ORGANIZER-24118001

  • [Presentation] Molecular Dynamics Simulations of Ets1-DNA complexes using Zero-Dipole Summation Method2012
    • Author(s)
      中村　春木
    • 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] 抗原抗体相互作用における親和性創出機構の精密解析2012
    • Author(s)
      中村　春木
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      名古屋国際会議場
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Prediction of Protein-Protein Complex Structures Using a Docking Server, surFit2012
    • Author(s)
      Nakamura, H.
    • Organizer
      The 26th Annual Symposium of the Protein Society
    • Place of Presentation
      Manchester Grand Hyatt, San Diego, California, USA
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] A simple non-Ewald scheme: the zero-dipole summation method and its application to molecular systems2012
    • Author(s)
      Nakamura, H.
    • Organizer
      Conference on Computational Physics (CCP2012)
    • Place of Presentation
      Nichii Gakkan, Kobe
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Atoms in molecules法によるタンパク質αへリックス、βシートの水素結合相互作用の理論解析2012
    • Author(s)
      中村　春木
    • 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-23657103

  • [Presentation] 蛋白質-蛋白質ドッキングのためのスコア関数の開発：抗原抗体の場合2012
    • Author(s)
      中村　春木
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      名古屋国際会議場
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Zero-dipole summation法を用いた、DNAおよびタンパク質-DNA複合体の分子動力学シミュレーション2012
    • Author(s)
      中村　春木
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      名古屋国際会議場
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Structural properties of hub proteins in interaction networks and its implications on interaction promiscuity2011
    • Author(s)
      中村　春木
    • 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] Intrinsically Disordered Proteins and Development of Corresponding Drugs2011
    • Author(s)
      Nakamura H
    • Organizer
      CADD2011 (Plenary Lecture)
    • Place of Presentation
      Penang, Malaysia
    • Year and Date
      2011-12-05
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Simple and easy application of Wang-Landau method to molecular dynamics simulations2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 補因子Fe_4S_4クラスターの酸化還元反応における電子構造の理論的研究2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-18
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 大量データと大規模計算機による蛋白質の構造・機能解析2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会 シンポジウム 「蛋白質研究法先進計測・解析技術の新展開」
    • Place of Presentation
      札幌コンベンションセンター・札幌(招待講演)
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Study on 4'-Phosphopantetheinyl Transfer Reactions to Acyl Carrier Protein : the Preliminary Processes of Human Fatty Acid Synthesis2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] PDBj : Protein structural database and query system for protein functions2010
    • Author(s)
      Haruki Nakamura
    • Organizer
      International CD and Bioinformatics Conference
    • Place of Presentation
      Warwick University, UK(招待講演)
    • Year and Date
      2010-12-03
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] High-throughput and Low-resolution structure comparison of 3D electron microscopy data2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-22
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 光合成反応中心スペシャルペアの電子構造解析2010
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      スーパーコンピューターワークショップ2010
    • Place of Presentation
      分子科学研究所
    • Year and Date
      2010-01-13
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] ProMode-Elastic : database of elastic-network-model based normal mode analysis2010
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Bioinformatics (InCoB2010)
    • Place of Presentation
      早稲田大学、東京
    • Year and Date
      2010-09-27
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Structural modeling for protein complexes using small angle x-ray scattering2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-22
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Electronic structures of the novel [4F-4S] cluster in dark-operative protochlorophyllide oxidoreductase2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-20
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] QM/MM分子動力学シミュレーションによる脂肪酸合成に関わるアシルキャリアー蛋白質のホスフォパンテティン化酵素反応の研究2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 自然免疫蛋白質の機能アノテーション2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-18
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 大量データと大規模計算機による蛋白質の構造・機能解析2010
    • Author(s)
      中村春木
    • Organizer
      日本蛋白質科学会
    • Place of Presentation
      札幌コンベンションセンター
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Bioinformatics and computational approaches to structural features in protein interactions for in-silico drug development.2010
    • Author(s)
      中村春木
    • Organizer
      The 1st international conference on frontiers of regenerative medicine and biomedical science.
    • Place of Presentation
      Jinan University, Guangzhoue(China)
    • Year and Date
      2010-05-14
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 粗視化モデルによる脂肪酸合成酵素の構造変化シミュレーション2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-18
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Charge density migration of the propionate groups of heme a of cytochrome c oxidase in the redox reaction2010
    • Author(s)
      Y.Takano, H.Nakamura
    • Organizer
      The 2nd Biosupercomputing Symposium
    • Place of Presentation
      MY PLAZA Hall, Tokyo
    • Year and Date
      2010-03-18
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] X線小角散乱を用いたタンパク質複合体の構造モデリングを目指して2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 低分解能3次元電子顕微鏡データのハイスループット構造比較2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-18
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Domain distribution and intrinsic disorder in hubs in the human protein-protein interaction network2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Structural Bioinformatics : Databases and Analyses2010
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 9th China-Japan-Korea Bioinformatics Training Course and Bioinformatics Symposium
    • Place of Presentation
      Shanghai Institutes for Biological Sciences Chinese Academy of Sciences, Shanghai, China(招待講演)
    • Year and Date
      2010-04-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 光合成反応中心スペシャルペアの電子構造の蛋白質依存性2010
    • Author(s)
      中村春木
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター・札幌
    • Year and Date
      2010-06-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Conformational transition in the CDRH3 region of the anti-dansyl monoclonal antibody by molecular dynamics simulations2010
    • Author(s)
      中村春木
    • Organizer
      第48回生物物理学会年会
    • Place of Presentation
      東北大学、仙台
    • Year and Date
      2010-09-20
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Theoretical study on the electronic structure of the special pair in the photosynthetic reaction2010
    • Author(s)
      H.Yamasaki, Y.Takano, H.Nakamura
    • Organizer
      The 2nd Biosupercomputing Symposium
    • Place of Presentation
      MY PLAZA Hall, Tokyo
    • Year and Date
      2010-03-18
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 計算科学によるタンパク質間相互作用の予測と解析2010
    • Author(s)
      中村春木
    • Organizer
      蛋白質立体構造解析NEDO特別講座、創薬シンポジウム
    • Place of Presentation
      東京大学薬学部,東京
    • Year and Date
      2010-03-09
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Bioinformatics and Computational Approaches to Structural Features in Protein Interactions for in-silico Drug Development2010
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 1st International Conference on Frontier4s of Regenerative Medicine and Biomedical Science
    • Place of Presentation
      Jinan University, Guangzhoue, China(招待講演)
    • Year and Date
      2010-05-14
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 粗視化モデルを用いた全原子モデルの効率化2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] チトクロムc酸化酵素のArg38のpK_aに対するheme aの制御機構の理論的研究2009
    • Author(s)
      鷹野優、中村春木
    • Organizer
      特定領域研究「生体超分子構造」第6回公開シンポジウム
    • Place of Presentation
      千里ライフサイエンスセンター
    • Year and Date
      2009-12-02
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] Theoretical analysis of the side group rotamers of chlorophyll2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      次世代生命体統合PJ分子スケールワークショップ:「ペタフロップスコンピューティングに向けた生体高分子シミュレーションの最前線」
    • Place of Presentation
      東京大学生産技術研究所
    • Year and Date
      2009-08-10
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 天然変性蛋白質pKIDとKIXドメイン複合体形成における結合と折り畳みが共役した相互作用の計算科学による解析2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-31
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 原子構造から電子構造の解析へ2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-31
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Protein Functional Annotation from Structures2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      NEDO International Symposium
    • Place of Presentation
      The Univ. Tokyo (Japan)
    • Year and Date
      2009-01-26
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] シトクロムc酸化酵素CuAサイトの電子状態解析2009
    • Author(s)
      小泉健一、鷹野優、中村春木
    • Organizer
      第9回蛋白質科学会
    • Place of Presentation
      熊本全日空ホテルニュースカイ
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] Ligand coordination effects on the electronic structures of the models of hemocyanin2009
    • Author(s)
      Y.Takano, K.Yamaguchi, H.Nakamura
    • Organizer
      Diradicals and Multiradicals : Theory and Experiment
    • Place of Presentation
      FUNDP, Namur, Belgium
    • Year and Date
      2009-07-28
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 反応中心スペシャルペアの電子非対称性の理論解析2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      第9回日本光合成研究会公開シンポジウム「植物の生産性を支える多様な側面」
    • Place of Presentation
      東京大学
    • Year and Date
      2009-05-29
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] ヘムエリスリンの活性中心の電子構造への蛋白場の影響2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] シミュレーションとデータベース検索によるヒトラミニレ活性発現のために重要な立体構造の検討2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] シトクロムc酸化酵素CuAサイトの電子状態解析2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 粗視化モデルを用いた全原子シミュレーションの効率化2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-31
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] シトクロム酸化酵素CuAサイトの酸化還元電位に及ぼす周辺残基の効果についての理論的研究2009
    • Author(s)
      小泉健一、鷹野優、重田育照、神谷克政、中村春木、押山淳
    • Organizer
      第3回分子科学討論会2009名古屋
    • Place of Presentation
      名古屋大学
    • Year and Date
      2009-09-22
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] スーパーコンピューティングによる蛋白質電子状態及び反応機構の解明に向けて2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-31
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Electronic structures of biological molecules with their dynamic environments2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Physics Biology Interface(ICPBI-2009)
    • Place of Presentation
      Saha Institute of Nulear Physics, Kolkata, India
    • Year and Date
      2009-12-15
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 蛋白質構造データバンク事業と国際的な展開2009
    • Author(s)
      中村春木
    • Organizer
      統合データベースプロジェクト「データベースが拓くこれからのライフサイエンス」
    • Place of Presentation
      東京大学武田ホール、東京
    • Year and Date
      2009-06-12
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 光合成反応中心の色素配置に関する理論研究2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      第9回蛋白質科学会
    • Place of Presentation
      熊本全日空ホテルニュースカイ
    • Year and Date
      2009-05-22
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] ポルフィリン側鎖のヘムの電子構造への影響に関する理論的研究2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-30
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Bioinformatics and computational approaches to structural features in protein-protein interactions2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      Bose Institute Seminar
    • Place of Presentation
      Bose Institute, Kolkata, India
    • Year and Date
      2009-12-16
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] マルチカノニカル分子動力学シミュレーションによる57残基蛋白質の天然構造の再現2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Protein Function Annotation from Sequences and Structures with Tools at PDBj2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      AsCA'09
    • Place of Presentation
      Jingyi Hotel, Beijing,中国
    • Year and Date
      2009-10-24
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] クロロフィル側鎖の回転に伴う電子構造変化の理論的研究2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      第12回理論化学討論会
    • Place of Presentation
      東京大学武田先端知ビル武田ホール
    • Year and Date
      2009-05-28
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] Structural modeling of proteins : Principle and application to an ion channel2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 36th Congress of the International Union of Physiological Sciences
    • Place of Presentation
      国立京都国際会館、京都
    • Year and Date
      2009-07-29
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] クロロフィル側鎖回転異性体の理論解析2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-11-01
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Prediction of function and protein-protein interaction by structural bioinformatics approach2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      IISc Seminar
    • Place of Presentation
      Indian Institute of Science, Bangalore, India
    • Year and Date
      2009-12-17
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Density Functional Study of Roles of Porphyrin Ring in Electronic Structures of Heme2009
    • Author(s)
      鷹野優、中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      徳島文理大学・アスティとくしま
    • Year and Date
      2009-10-30
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 光合成反応中心の色素配置に関する理論研究2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-22
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 分子動力学シミュレーションによる蛋白質周辺における水分子の集団的運動の解析2009
    • Author(s)
      梅澤公二、森河良太、鷹野優、中村春木、肥後順一
    • Organizer
      「特定領域研究」生体超分子の構造形成と機能制御の原子機構第5回ワークショップ
    • Place of Presentation
      湘南国際村センター国際会議場
    • Year and Date
      2009-07-27
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 単純並列化によるマルチカノニカル分子動力学法のサンプリング効率の向上2009
    • Author(s)
      池部仁善、梅澤公二、肥後順一、神谷成敏、杉原崇憲、米澤康滋、鷹野優、中村春木
    • Organizer
      特定領域研究「生体超分子構造」第6回公開シンポジウム
    • Place of Presentation
      千里ライフサイエンスセンター
    • Year and Date
      2009-12-02
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] 分子動力学シミュレーションによる、蛋白質周辺における水分子の協調的な動きの解析2009
    • Author(s)
      梅澤公二、森河良太、鷹野優、中村春木、肥後順一
    • Organizer
      特定領域研究「生体超分子構造」第6回公開シンポジウム
    • Place of Presentation
      千里ライフサイエンスセンター
    • Year and Date
      2009-12-02
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] Theoretical analysis of the side group rotamers of chlorophyll2009
    • Author(s)
      山崎秀樹、鷹野優、中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      徳島文理大学・アスティとくしま
    • Year and Date
      2009-11-01
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] surFit : A Docking server of protein molecular surfaces2009
    • Author(s)
      Haruki Nakamura
    • Organizer
      4th CAPRI Evaluation Meeting
    • Place of Presentation
      Barcelona, Spain
    • Year and Date
      2009-12-09
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Ab initio QM/MDシミュレーションによるプロリンcis-trans異性化の自由エネルギー地形と水和の影響2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Rhodobacter sphaeroides活性中心のAb initio QM/MMによる研究2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-31
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] シミュレーション計算によって57残基蛋白質の天然構造をアミノ酸情報だけから再現する2009
    • Author(s)
      池部仁善、Daron M.Standley、鷹野優、中村春木、肥後順一
    • Organizer
      「特定領域研究」生体超分子の構造形成と機能制御の原子機構第5回ワークショップ
    • Place of Presentation
      湘南国際村センター国際会議場
    • Year and Date
      2009-07-27
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] ヘムエリスリンの活性中心の電子構造への蛋白場の影響2009
    • Author(s)
      鷹野優、小泉健一、山口兆、中村春木
    • Organizer
      第9回蛋白質科学会
    • Place of Presentation
      熊本全日空ホテルニュースカイ
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20051013

  • [Presentation] あらわな溶媒と膜分子モデルによるダイナミックな効果を取り入れた光合成活性中心の電子状態計算2009
    • Author(s)
      中村春木
    • Organizer
      第9回日本蛋白質科学会年会
    • Place of Presentation
      熊本全日空ホテルニュースカイ、熊本
    • Year and Date
      2009-05-21
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 単純並列化によるマルチカノニカル分子動力学法のサンプリング効率の向上2009
    • Author(s)
      中村春木
    • Organizer
      第47回日本生物物理学会年会
    • Place of Presentation
      アスティとくしま、徳島
    • Year and Date
      2009-10-30
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] ウシシトクロムc酸化酵素のヘムaの酸化還元状態における電子構造2008
    • Author(s)
      中村春木
    • Organizer
      スーパーコンピュータワークショップ2008「大規模計算と分子のダイナミクス」
    • Place of Presentation
      分子科学研究所,岡崎
    • Year and Date
      2008-02-18
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] PiRaNha : 蛋白質配列からのRNA結合残基予測2008
    • Author(s)
      中村春木
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-04
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Protein functional annotation from pattern recognition for 3D structures.2008
    • Author(s)
      中村春木
    • Organizer
      Pattern Recognition in Bioinformatics 2008
    • Place of Presentation
      Novotel St Kilda, Melbourne(Australia)
    • Year and Date
      2008-10-15
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] ウシシトクロムc酸化酵素のヘムaの酸化還元状態における電子構造2008
    • Author(s)
      中村春木
    • Organizer
      日本化学会第88回春期年会
    • Place of Presentation
      立教大学,東京
    • Year and Date
      2008-03-29
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 光合成反応中心スペシャルペアの電子非対称性の理論解析2008
    • Author(s)
      中村春木
    • Organizer
      スーパーコンピュータワークショップ2008「大規模計算と分子のダイナミクス」
    • Place of Presentation
      分子科学研究所,岡崎
    • Year and Date
      2008-02-18
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 光合成反応中心スペシャルペアの電子非対称性の理論解析2008
    • Author(s)
      中村春木
    • Organizer
      スーパーコンピュータワークショップ2008「大規模計算と分子のダイナミクス」
    • Place of Presentation
      分子科学研究所(岡崎)
    • Year and Date
      2008-02-18
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 粗視化モデルを用いた全原子シミュレーションの効率化2008
    • Author(s)
      中村春木
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-03
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] A theoretical analysis of electronic asymmetry of the special pari in photosynthetic reaction center2008
    • Author(s)
      H., Yamasaki, Y., Takano, H., Nakamura
    • Organizer
      Supercomputer Workshop 2008 : Large-scale computation and molecular dynamics
    • Place of Presentation
      Institute for Molecular Science, Okazaki
    • Year and Date
      2008-02-18
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Pattern recognition for protein 3D structures2008
    • Author(s)
      中村春木
    • Organizer
      情報処理学会バイオ情報学研究会
    • Place of Presentation
      大阪大学(豊中・大阪)
    • Year and Date
      2008-12-18
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Theoretical study of the roles of heme side chains and axial ligands2008
    • Author(s)
      Nakamura, Haruki
    • Organizer
      48th Sanibel Symposium
    • Place of Presentation
      The King and Prince Golf & Beach Resort, Georgia,米国
    • Year and Date
      2008-02-26
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] ウシシトクロムc酸化の酵素のヘムαの酸化還元状態における電子構造2008
    • Author(s)
      中村春木
    • Organizer
      スーパーコンピュータワークショップ2008 「大規模計算と分子のダイナミクス」
    • Place of Presentation
      分子科学研究所(岡崎)
    • Year and Date
      2008-02-18
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] マルチカノニカル分子動力学法によるアミロイドペプチド4本鎖の会合シミュレーション2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Development of a scoring method for predicting protein complex structures2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      2^<nd> Pacific Rim International Conference on Protein Science
    • Place of Presentation
      Cairns Convention Centre, Australia
    • Year and Date
      2008-06-23
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 抗体相補性決定領域の網羅的構造分類2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Quantum chemical study of the spin density distribution of the special paircation radical in the photosynthetic reaction center2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 1st International Global COE Symposium on Bio-Environmental Chemistry
    • Place of Presentation
      Hotel Hankyu EXPO Park, Osaka
    • Year and Date
      2008-01-28
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Development of scoring functions for predicting protein complex structures2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      Japan-UK Symposium on Protein InformaticS toward Interactome Analysis
    • Place of Presentation
      千里ライフサイエンスセンター(大阪)
    • Year and Date
      2008-09-01
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Standardization, Validation and Integration of Protein 3D Structure Information2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      4'th International Symposium on StandardReference Data
    • Place of Presentation
      Daejeon Convention Center, Daejeon (Korea)
    • Year and Date
      2008-10-28
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] H3-rules, Progress report 20072008
    • Author(s)
      Haruki Nakamura
    • Organizer
      2^<nd> Pacific Rim International Conference on Protein Science
    • Place of Presentation
      Cairns Convention Centre, Australia
    • Year and Date
      2008-06-23
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] ウシシトクロムc酸化酵素のヘムαの酸化還元状態における電子構造2008
    • Author(s)
      中村春木
    • Organizer
      日本化学会第88回春期年会
    • Place of Presentation
      立教大学(東京)
    • Year and Date
      2008-03-29
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Quantum chemical study of the spin density distribution of the special pair cation radical in the photosynthetic reaction center2008
    • Author(s)
      H., Yamasaki, Y., Takano, H., Nakamura
    • Organizer
      The 1st International Global COE Symposium on Bio-Environmental Chemistry
    • Place of Presentation
      Hotel Hankyu EXPO park, Osaka
    • Year and Date
      2008-01-28
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Dynamical Aspects of MAOA funcfion: Membrane Attachment Facilitates Ligand Access,2008
    • Author(s)
      中村春木
    • Organizer
      Perspective in Structural Biology of Membrane Proteins and Biological Macromolecules
    • Place of Presentation
      大阪大学蛋白質研究所,大阪
    • Year and Date
      2008-03-22
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Protein functional annotation from pattern recognition for 3Dstructures2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      Pattern Recognition in Bioinformatics 2008
    • Place of Presentation
      Novotel St Kilda, Melbourne (Australia)
    • Year and Date
      2008-10-15
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Quantum chemical study of the spin density distribution of the special pair cation radical in the photosynthetic reaction center2008
    • Author(s)
      Nakamura, Haruki
    • Organizer
      The lst International Global COE Symposium on Bio-Environmental Chemistry
    • Place of Presentation
      ホテル阪急EXPOパーク,大阪
    • Year and Date
      2008-01-28
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Electronic structure of heme a in bovine cytochrome c oxidase in the redox state2008
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      Supercomputer Workshop 2008 : Large-scale computation and molecular dynamics
    • Place of Presentation
      Institute for Molecular Science, Okazaki
    • Year and Date
      2008-02-18
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Flexible protein-protein docking by Monte Carlo plus Minimization of an all-atom field2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] アルファ/ベーダ両二次構造を含む40残基蛋白質の立体構造サンプリング2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 抗体カノニカル構造再訪2008
    • Author(s)
      中村春木
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-04
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 蛋白質複合体構造予測のための評価法の開発2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] PiRaNhA : A Server for the Prediction of RNA-binding Residues in Protein Sequences2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Bioinformatics, 2008
    • Place of Presentation
      National Yang Ming University (Taiwan)
    • Year and Date
      2008-10-20
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 蛋白質周辺における水の協調的な流れの分子動力学シミュレーションによる解析2008
    • Author(s)
      中村春木
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] IG-Base : immunoglobulin structural database for antibody engineenng2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 3^<rd> MEI International Symposium
    • Place of Presentation
      Hyatt Regency San-FranciSCO(U.S.A.)
    • Year and Date
      2008-12-02
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Dynamical Aspects of MAOA function: Membrane Attachment Facilitates Ligand Access2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      Perspective in Structural Biology of Membrane Proteins and Biological Macromolecules
    • Place of Presentation
      大阪大学蛋白質研究所(大阪)
    • Year and Date
      2008-03-22
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Theoretical study of the roles of heme side chains and axial ligands2008
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      48'th Sanibel Symposium
    • Place of Presentation
      The King and Prince Golf & Beach Resort, Georgia, U.S.A
    • Year and Date
      2008-02-26
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Electronic structure of heme a in bovine cytochrome c oxidase in the redox state2008
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      88'th Spring Meeting of The Chemical Society of Japan
    • Place of Presentation
      Rikkyo University, Tokyo
    • Year and Date
      2008-03-29
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Theoretical study of the roles of heme side chains and axial ligands2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      48th Sanibel Symposium
    • Place of Presentation
      The King and Prince Golf& Beach Resort, Georgia, USA
    • Year and Date
      2008-02-26
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] ヘテロタイマーの多様性 : 蛋白質複合体構造予測の研究から得られた知見2008
    • Author(s)
      中村春木
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-04
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] Assembly simulation of four peptide chains in explicit waterby multicanonical molecular dynamics2008
    • Author(s)
      Haruki Nakamura
    • Organizer
      2^<nd> Pacific Rim International Conference on Protein Science
    • Place of Presentation
      Cairns Convention Centre, Australia
    • Year and Date
      2008-06-23
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] リゾチーム周辺における水分子の流れパターン(順流、渦流、Dry/Wet流れ)に関する分子シミュレーションによる解析2008
    • Author(s)
      中村春木
    • Organizer
      第46回日本生物物理学会年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2008-12-05
    • Data Source
      KAKENHI-PROJECT-20370061

  • [Presentation] 大腸菌エンドヌクレアーゼ の基質認識機構の計算化学的研究2007
    • Author(s)
      中村春木
    • Organizer
      第30回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-13
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Molecular simulations of protein-ligand structures constructed by computational doking2007
    • Author(s)
      A., Oda, Y., Takano, H., Nakamura, N., Yamaotsu, S., Hirono, O., Takahashi, H., Matsuzaki
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] マルチカノニカル分子動力学法による酵素-阻害剤間のフレキシブルドッキング2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター(仙台)
    • Year and Date
      2007-05-25
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Computational studies of the substrate recognition mechanism of Escherichia coil endonuclease III2007
    • Author(s)
      K., Manabe, Y., Takano, K., Hitomi, J.A., Tainer, H., Nakamura, N., Iwai
    • Organizer
      BMB 2007
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-13
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] タンパク質-リガンド複合体予測構造の分子シミュレーションによる評価2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-21
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Structural Features of Hubs in Protein-Protein Interaction Networks2007
    • Author(s)
      Nakamura, Haruki
    • Organizer
      上海大学セミナー
    • Place of Presentation
      上海大学 Institute of Systems Biology,上海
    • Year and Date
      2007-03-29
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Flexible docking between enzyme and inhibitor by multicanonical molecular dynamics2007
    • Author(s)
      N., Kamiya, Y., Yonezawa, H., Nakamura, J., Higo
    • Organizer
      7'th Annual Meeting of Protein Science Society of Japan
    • Place of Presentation
      Sendai International Center, Sendai
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] マルチカノニカル分子動力学法による酵素-阻害剤間のフレキシブルドッキング2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター,仙台
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] プロリン異性化酵素Pin1のQM/MM錬成計算シミュレーション研究2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター,仙台
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Structural Features of Hubs in Protein-Protein Interaction Networks2007
    • Author(s)
      Nakamura, Haruki
    • Organizer
      PROTEIN ASSEMBLY, DYNAMICS AND FUNCTION
    • Place of Presentation
      Institut des Haute Etudes Scientifiques,パリ
    • Year and Date
      2007-01-11
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Electronic structure of heme a in cytochrome c oxidase in the redox state2007
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      7'th Annual Meeting of Protein Science Society of Japan
    • Place of Presentation
      Sendai International Center, Sendai
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] タンパク質-リガンド複合体予測構造の分子シミュレーションによる評価2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] アルファとベータの二次構造を含む40残基の蛋白質H-NSのfolding simulation2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素のheme aの酸化還元における電子構造変化とプロトン移動との関係2007
    • Author(s)
      中村春木
    • Organizer
      第1回分子科学討論会2007仙台
    • Place of Presentation
      東北大学川内北キャンパス
    • Year and Date
      2007-09-18
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 光合成活性中心スペシャルペアカチオンラジカルのスピン密度分布に関する理論的研究2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 大腸菌エンドヌクレアーゼIIIの基質認識機構の計算化学的研究2007
    • Author(s)
      中村春木
    • Organizer
      分子生物学会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-13
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] QM/MMシミュレーションによるPinl蛋白質のCis-Trans異性化酵素活性研究2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-21
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A theoretical approach to a novel proton transfer pathway of cytochrome c oxidase2007
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-23
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A QM/MM molecular dynamics study on peptidyl-prolyl isomerase Pinl2007
    • Author(s)
      Y., Yonezawa, N., Kamiya, T., Takada, H., Nakamura
    • Organizer
      7'th Annual Meeting of Protein Science Society of Japan
    • Place of Presentation
      Sendai International Center, Sendai
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      R., Apostolov, Y., Yonezawa, H., Nakamura
    • Organizer
      7'th Annual Meeting of Protein Science Society of Japan
    • Place of Presentation
      Sendai International Center, Sendai
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 光合成活性中心スペシャルペアカチオンラジカルのスピン密度分布に関する理論的研究2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-22
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素のheme aの酸化還元状態における電子構造2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター(仙台)
    • Year and Date
      2007-05-25
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-21
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Prediction of protein-protein interaction using evolutionary trance method and molecular surface complementarity2007
    • Author(s)
      E Kanamori, Y Murakami, Y Tsuchiya, D Standley, K Kinoshita, H Nakamura
    • Organizer
      CAPRI evaluation meeting
    • Place of Presentation
      Canada
    • Year and Date
      2007-04-21
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Presentation] Quantum chemical study of the spin density distribution of the special pair cation radical in the bacterial photosynthetic reaction center2007
    • Author(s)
      H., Yamasaki, Y., Takano, H., Nakamura
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素のheme αの酸化還元状態における電子構造2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター,仙台
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Structural Features of Hubs in Protein-Protein Interaction Networks2007
    • Author(s)
      H., Nakamura
    • Organizer
      PROTEIN ASSEMBLY, DYNAMICS AND FUNCTION
    • Place of Presentation
      Institut des Haute Etudes Scientifiques, Paris
    • Year and Date
      2007-01-11
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A theoretical approach to a novel proton transfer pathway of cytochromc coxidase2007
    • Author(s)
      Nakamura, Haruki
    • Organizer
      International Symposium on Molecular Theory for Real Systems
    • Place of Presentation
      京都大学桂キャンパス,京都
    • Year and Date
      2007-07-28
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素の新しいプロトン輸送機構への理論的アプローチ-heme αの酸化還元における電子構造とペプチドを介したプロトン移動の関係-2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-23
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Molecular orbital study of the proton transfer through a peptide bond-A theoretical approach to a novel pathway of proton translocation of cytochrome c oxidase-2007
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      ICCMSE2007
    • Place of Presentation
      Marbella Corfu Hotel, Greece
    • Year and Date
      2007-09-26
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素のheme αの酸化還元における電子構造変化とプロトン移動との関係2007
    • Author(s)
      中村春木
    • Organizer
      第1回分子科学討論会2007仙台
    • Place of Presentation
      東北大学川内北キャンパス,仙台
    • Year and Date
      2007-09-18
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Structural Features of Hubs in Protein-Protein Interaction Networks2007
    • Author(s)
      H., Nakamura
    • Organizer
      Shanghai University Seminar
    • Place of Presentation
      Institute of Systems Biology, Shanghai University, Shanghai
    • Year and Date
      2007-03-29
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] QM/MMシミュレーションによるPinl蛋白質のCis-Trans異性化酵素活性研究2007
    • Author(s)
      中村春木
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜,横浜
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A theoretical approach to a novel proton transfer pathway of cytochrome c oxidase2007
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      International Symposium on Molecular Theory for Real Systems
    • Place of Presentation
      Kyoto University
    • Year and Date
      2007-07-28
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Relationship between electronic structural change and proton transfer of heme a in cytochrome c oxidase in the redox state2007
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      1'st meeting of Japan Society of Molecular Science 2007 at Sendai
    • Place of Presentation
      Tohoku University
    • Year and Date
      2007-09-18
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター,仙台
    • Year and Date
      2007-05-25
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] チトクロムc酸化酵素の新しいプロトン輸送機構への理論的アプローチ -heme αの酸化還元における電子構造とペプチドを介したプロトン移動の関係-2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-23
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Molecular orbital study of the proton transfer through a peptide bond-A theoretical approach to a novel pathway of proton translocation of cytochrome coxidase-2007
    • Author(s)
      Nakamura, Haruki
    • Organizer
      ICCMSE2007
    • Place of Presentation
      Marbella Corfu Hotel,ギリシャ
    • Year and Date
      2007-09-26
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター(仙台)
    • Year and Date
      2007-05-25
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] プロリン異性化酵素PinlのQM/MM錬成計算シミュレーション研究2007
    • Author(s)
      中村春木
    • Organizer
      第7回日本蛋白質科学会年会
    • Place of Presentation
      仙台国際センター(仙台)
    • Year and Date
      2007-05-25
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] アルファとベータの二次構造を含む40残基の蛋白質H-NSのfolding simulation2007
    • Author(s)
      中村春木
    • Organizer
      第45回日本生物物理学会年会
    • Place of Presentation
      パシフィコ横浜(横浜)
    • Year and Date
      2007-12-22
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A theoretical approach to a novel proton transfer pathway of cytochrome coxidase2007
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Symposium on Molecular Theory for Real Systems
    • Place of Presentation
      Kyoto University (Katsuracampus)
    • Year and Date
      2007-07-28
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] A Computational Study of Monoamine Oxidase A Dynamics2007
    • Author(s)
      R., Apostolov, Y., Yonezawa, H., Nakamura
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] QM/MM simulation study on the mechanism of cis-trans isomerization of human Pinl protein2007
    • Author(s)
      Y., Yonezwa, N., Kamiya, H., Nakamura
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-21
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Folding simulation of a 40-residue protein, H-NS, involving alpha and beta secondary structures in explicit water2007
    • Author(s)
      J., Higo, J., Ikebe, N., Kamiya, H., Nakamura, H., Shindo
    • Organizer
      45'th Annual Meeting of Biophysical Society of Japan
    • Place of Presentation
      Pacifico Yokohama, Yokohama
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Prediction of protein-protein interaction using evolutionary trance method and molecular surface complementarity2007
    • Author(s)
      E Kanamori, Y Murakami, Y Tsuchiya, D Standley, K Kinoshita, H Nakamura
    • Organizer
      CAPRI evaluation meeting
    • Place of Presentation
      Toronto Canada
    • Year and Date
      2007-04-21
    • Data Source
      KAKENHI-PROJECT-17081003

  • [Presentation] Theoretical analysis of electronic asymmetry of the special pair in the photosynthetic reaction center: Effect of protein environment2006
    • Author(s)
      Nakamura, Haruki
    • Organizer
      EABS & BSJ 2006
    • Place of Presentation
      沖縄コンベンションセンター沖縄県宜野湾市
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] QM/MM study on catalytic mechanism of PPIase protein Pin12006
    • Author(s)
      Nakamura, Haruki
    • Organizer
      EABS & BSJ 2006
    • Place of Presentation
      沖縄コンベンションセンター沖縄県宜野湾市
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Large-scale molecular dynamics simulations with the pariwise electrostatic interaction method for protein-solvent systems2006
    • Author(s)
      G., Kikugwa, Y., Yonezawa, H., Nakamura, R., Himeno
    • Organizer
      EABS &BSJ
    • Place of Presentation
      Okinawa Convention Center, Ginowan, Okinawa
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Theoretical analysis of electronic asymmetry of the special pair in the photosynthetic reaction center : Effect of protein environment2006
    • Author(s)
      H., Yamasaki, Y., Takano, H., Nakamura
    • Organizer
      EABS &BSJ
    • Place of Presentation
      Okinawa Convention Center, Ginowan, Okinawa
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Protein function analyses from structural bioinformatics approach2006
    • Author(s)
      H., Nakamura
    • Organizer
      EABS &BSJ
    • Place of Presentation
      Okinawa Convention Center, Ginowan, Okinawa
    • Year and Date
      2006-11-15
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Quantum mechanical study of the proton transfer via a peptide bond in the novel pathway of proton translocation of cytochrome c oxidase2006
    • Author(s)
      Y., Takano, H., Nakamura
    • Organizer
      EABS &BSJ
    • Place of Presentation
      Okinawa Convention Center, Ginowan, Okinawa
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] QM/MM study on catalytic mechanism of PPIase protein Pinl2006
    • Author(s)
      Y., Yonezawa, N., Kamiya, H., Nakamura
    • Organizer
      EABS &BSJ
    • Place of Presentation
      Okinawa Convention Center, Ginowan, Okinawa
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Protein fhnction analyses from structural bioinformatics approach2006
    • Author(s)
      Nakamura, Haruki
    • Organizer
      EABS & BSJ 2006
    • Place of Presentation
      沖縄コンベンションセンター沖縄県宜野湾市
    • Year and Date
      2006-11-15
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Quantum mechanical study of the proton transfer via a peptide bond in the novel pathway of proton translocation of cytochrome c oxidase2006
    • Author(s)
      Nakamura, Haruki
    • Organizer
      EABS & BSJ 2006
    • Place of Presentation
      沖縄コンベンションセンター沖縄県宜野湾市
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Large-scale molecular dynamics simulations with the pariwise electrostatic interaction method for protein-solvent systems2006
    • Author(s)
      Nakamura, Haruki
    • Organizer
      EABS & BSJ 2006
    • Place of Presentation
      沖縄コンベンションセンター沖縄県宜野湾市
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] 分子動力学シミュレーション解析のためのMulti-modal Dynamic Cross Correlation法の開発と応用
    • Author(s)
      笠原浩太, 福田育夫, 中村春木
    • Organizer
      生命医薬情報学連合大会
    • Place of Presentation
      仙台国際センター
    • Year and Date
      2014-10-02 – 2014-10-04
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] Prediction of Protein-Protein Interactions: Structural Approaches
    • Author(s)
      Haruki Nakamura
    • Organizer
      The 2nd HD Physiology International Symposium
    • Place of Presentation
      丸の内MY PLAZAホール（東京）
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Dynamical Aspects of MAOA function : Membrane Attachment Facilitates Ligand Access
    • Author(s)
      R., Apostolov, Y., Yonezawa, H., Nakamura
    • Organizer
      Perspective in Structural Biology of Membrane Proteins and Biological Macromolecules
    • Place of Presentation
      Osaka University, Osaka
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-18370063

  • [Presentation] Towards quantitative analysis and prediction of protein-protein interactions
    • Author(s)
      Haruki Nakamura
    • Organizer
      5th JCS (Japan, Czech, Slovakia) International Symposium on Theoretical Chemistry
    • Place of Presentation
      東大寺総合文化センター（奈良市）
    • Invited
    • Data Source
      KAKENHI-PROJECT-23657103

  • [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] 蛋白質の二次構造形成に関わる相互作用に関する理論的研究
    • Author(s)
      鷹野優・中村春木
    • Organizer
      文部科学省科学研究費新学術領域「コンピューティクスによる物質デザイン：複合相関と非平衡ダイナミクス」平成25年度第2回研究会
    • Place of Presentation
      東京大学 本郷キャンパス 工学部6号館
    • Data Source
      KAKENHI-PROJECT-23657103

  • [Presentation] A new non-Ewald scheme: The zero-dipole summation method and its applications to molecular dynamics simulations for homogeneous and inhomogeneous biomolecular systems
    • Author(s)
      Haruki Nakamura
    • Organizer
      National Symposium on Frontiers of Biophysics, Biotechnology & Bioinformatics and 37'th Annual Meeting of Indian Biophysical Society
    • Place of Presentation
      University of Mumbai, India
    • Invited
    • 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-PROJECT-23370071

  • [Presentation] Molecular dynamics study on enhancer recognitions by cooperative binding of Ets1 and partner transcription factors
    • Author(s)
      Kota Kasahara, Ikuo Fukuda, and Haruki Nakamura
    • Organizer
      The 4th Asia Pacific Protein Association Conference
    • Place of Presentation
      Jeju, Korea
    • Year and Date
      2014-05-17 – 2014-05-20
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] TCDD曝露したマダイ胚のトランスクリプトーム解析
    • Author(s)
      飯田 緑, 藤井 聡, 内田 雅也, 中村 浩, 鏡 良弘, Bak, Su-Min, 金　恩英, 島 康洋, 岩田久人
    • Organizer
      日本内分泌撹乱化学物質学会
    • Place of Presentation
      東京大学
    • Year and Date
      2013-12-12 – 2013-12-13
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] RNaseHIのRNA加水分解反応機構に関する計算科学的研究
    • Author(s)
      鷹野優・喜多真琴・中村春木
    • 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-23657103

  • [Presentation] Computational Prediction and Analysis of Protein-Protein Interactions: Qualitative and Quantitative Approaches
    • Author(s)
      Haruki Nakamura
    • Organizer
      Special Seminar at Academia Sinica
    • Place of Presentation
      Academia Sinica, Shanghai
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Computational Protein Science: Structural Bioinformatics and Molecular Simulations
    • Author(s)
      Haruki Nakamura
    • Organizer
      CDAST symposium
    • Place of Presentation
      Jember University, Indonesia
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] Prediction of protein-protein complex structures
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Biomolecular Forms and Functions
    • Place of Presentation
      Indian Institute of Science Bangalore, India
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [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

  • [Presentation] SGDDによるGPCRに対する非ペプチド性アゴニストの開発
    • Author(s)
      中村春木
    • Organizer
      第12回 プロテインモール関西情報交流セミナー
    • Place of Presentation
      千里ライフサイエンスセンター（大阪）
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] 分子シミュレーションにおける新しい静電相互作用計算法の開発と応用
    • Author(s)
      福田育夫, Han Wang，中村春木
    • Organizer
      日本物理学会第70回年次大会
    • Place of Presentation
      早稲田大学
    • Year and Date
      2015-03-21 – 2015-03-24
    • Data Source
      KAKENHI-PROJECT-25390156

  • [Presentation] Gene Expression Changes Exposed to 2,3,7,8-Tetrachlorodibenzo-p-dioxin (TCDD) in Early Developmental Stage Embryos of Red Seabream (Pagrus major)
    • Author(s)
      M. Iida, Y. Murakami, Y. Shima, H. Nakamura, Y. Kagami, S. Fujii, A. Srai, H. Iwata
    • Organizer
      転写サイクル合同班会議
    • Place of Presentation
      ホテルおかだ（箱根湯本温泉）
    • Year and Date
      2013-08-05 – 2013-08-07
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] Transcriptome Analysis of Red Seabream (Pagrus major) Embryos Treated with 2,3,7,8-Tetrachlorodibenzo-p-Dioxin (TCDD)
    • Author(s)
      M. Iida, S. Fujii, M. Uchida, H. Nakamura, Y. Kagami, S.M. Bak, E.Y. Kim, Y. Shima, H. Iwata
    • Organizer
      Society of Toxicology
    • Place of Presentation
      Phoenix Convention Center, Arizona, USA
    • Year and Date
      2014-03-23 – 2014-03-27
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] A new non-Ewald scheme: The zero-dipole summation method and its applications to molecular dynamics simulations for homogeneous and inhomogeneous biomolecular systems
    • Author(s)
      Haruki Nakamura
    • Organizer
      National Symposium on Frontiers of Biophysics, Biotechnology & Bioinformatics and 37'th Annual Meeting of Indian Biophysical Society
    • Place of Presentation
      University of Mumbai, India
    • Invited
    • Data Source
      KAKENHI-PLANNED-24118008

  • [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] リボヌクレアーゼHIの RNA加水分解反応機構に関する計算化学的研究
    • Author(s)
      鷹野優・喜多真琴・中村春木
    • Organizer
      第7回分子科学討論会2013京都
    • Place of Presentation
      京都テルサ（京都市）
    • Data Source
      KAKENHI-PROJECT-23657103

  • [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] Prediction of protein-protein complex structures
    • Author(s)
      Haruki Nakamura
    • Organizer
      International Conference on Biomolecular Forms and Functions
    • Place of Presentation
      Indian Institute of Science Bangalore, India
    • Invited
    • 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] ゲノム情報（1D）から蛋白質の動的構造情報（4D）へ
    • Author(s)
      中村春木
    • Organizer
      日本学術会議公開シンポジウム
    • Place of Presentation
      日本学術会議講堂（東京）
    • Invited
    • Data Source
      KAKENHI-PROJECT-23370071

  • [Presentation] 分子動力学シミュレーション解析のためのMulti-modal Dynamic Cross Correlation法の開発と応用
    • Author(s)
      笠原浩太、福田育夫、中村春木
    • Organizer
      第3回生命医薬情報学連合大会
    • Place of Presentation
      仙台国際センター、仙台市
    • Year and Date
      2014-10-02 – 2014-10-04
    • Data Source
      KAKENHI-PLANNED-24118008

  • [Presentation] 二次構造形成に関する局所および非局所相互作用に関する計算化学的研究
    • Author(s)
      鷹野優・中村春木
    • Organizer
      スーパーコンピュータワークショップ2013
    • Place of Presentation
      自然科学研究機構　岡崎コンファレンスセンター
    • Data Source
      KAKENHI-PROJECT-23657103

  • [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] 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] 転写因子Ets1のDNA結合制御に関する分子シミュレーション研究
    • Author(s)
      笠原