KIDERA Akinori 木寺詔紀

Researcher Number	00186280
Other IDs
Affiliation *help	2016 – 2017 : 横浜市立大学, 生命医科学研究科, 教授 2014 : 横浜市立大学, 生命医科学研究科, 教授 2012 – 2013 : 横浜市立大学, その他の研究科, 教授 2009 – 2012 : Yokohama City University, 生命ナノシステム科学研究科, 教授 2010 – 2011 : Yokohama City University, 教授 … More
Review Section/Research Field	Principal Investigator Biophysics / Biological Sciences / Biophysics / Physical chemistry / Science and Engineering Except Principal Investigator Biological Sciences / Biophysics / Science and Engineering
Keywords	Principal Investigator 蛋白質 / 分子シミュレーション / タンパク質 / 生物物理 / タンパク質ダイナミクス / 精密化 / タンパク質複合体 / 主成分解析 / mode coupling / 計算物理学 … More Except Principal Investigator タンパク質 / 膜蛋白質 / 膜タンパク質 / 蛋白質 / X線結晶解析 / FAMSBASE / 立体構造 / 分子動力学 / 分子シミュレーション / モジュール / 水チャネル / Structural prediction / Protein / 構造予測 / 計算生物学 / ゲノム機能予測 / Principle of architecture / 構築原理 / シミュレーション / ダイナミックス / タンパク質立体構造 / 安定性 / アクアポリン / 3Dキーノート / らん藻ゲノム / Three-dimensional structure / Module / タンパク質立体構造予測 / ホモロジーモデリング / 分子認識 / X線結晶 / 蛋白質の構造 / タンパク質間ネットワーク / 進化 / Supramolecular Structure / Molecular Dynamics / 国際予測コンテストCASP4 / Computational biology / 比較・分類 / 水と生体分子のダイナミクス / ヒトゲノムアノテーション / Human genome annotation / Dynamics of Protein / normal modes / タンパク質-糖鎖相互作用 / プロテオミックス / 電子顕微鏡 / AQP4 / 超分子立体構造 / AQP3 / Mossbauer spectroscopy / ヒトゲノム・アノテーション / 構造ゲノミックス / 形質転換 / Simulation / Gtop / Threading / タンパク質-糖鎖予測 / 構造生物学 / おれたたみ / リゾチーム / シミュレーション計算 / 疎水殻の自動同定 / 生物物理 / 能動輸送 / conformational substates / 生体高分子 / Protein Folding / 疎水クラスタ / Protein Conformation / データベース / 相同蛋白質 / プロテオーム / ゲノム情報 / 立体構造解析 / 水の構造と物性 / タンパク質デザイン / マルチカノニカル統計 / Sugar-protein interaction / αラクトアルブミン / 基準振動 / dynamics / 機能 / Molecular Recognition / カロリメトリー / HetPDB-Navi / 二次元結晶 / タンパク質-リガンド相互作用 / 電子線結晶解析 / X-ray crystal analyses / Lysozyme / principal variety of protein folds / Folding / Calorimetry / DNA結合タンパク質 / Homology modeling / 蛋白質フォールディング / Prediction of genome function / 構造分類 / 熱測定 / 出版 / SOSUI / 疎水核 / 緩和時間 / 折れたたみ機構 / 線形応答理論 / 並列計算 / タンパク質の安定性 / Brownian Dynamics / Stability / クライオ電子顕微鏡 / PhoB / Design / ガラス転移 / Dynamics / タンパク質の折れたたみ機構 / 構造比較 / 構造予測国際コンテストCASP / イオンポンプ / ファージディスプレイ / Sf9細胞 / デザイン / 水和 / 予測生物学 / 選択的スプライシング / コンフォーメショナルサブステート / アクアポーリン / 3D-keynote / 機能ゲノミックス / ループ構造 / タンパク質-RNA相互作用 / Alternative splicing / 比較分類 / 立体構造予測 / チャネル蛋白質 / ブラウニアン・ダイナミクス / Trp Cage / 動力学 / Protein structure prediction / 公開講演会 / RNA・タンパク質相互作用 / キメラタンパク / タンパク質のダイナミックス / Bioinformatics / モデリング / フォールディング / 立体構造比較 / ATPase / X-ray crystallography / 画像解析 / glass-transition / Critical Assessment of Techniques for Protein Structure Prediction / Homology Modeling / 糖鎖-タンパク質相互作用 / Genome function prediction / 剛体分子動力学 / 電子線結晶構造解析 / 分子動力学シミュレーション / すき間 / relaxation time / 折れたたみ / アンフォールディング / スレッティング / 蛋白質の機能 / protein / 蛋白質の物性 / 構造探索 / 大量発現 / Database / Structural comparison / メスバウアースペクトロスコピー / 電子線結晶学 / 生命情報科学 / タンパク質-リガンド相互作用予測法 / タンパク質フォールディング / リゾチウム / 遷移状態 / 構造変化 / サブユニット相互作用 / スレッディング / Molecular simulation / クライオ技術 / Molecular Surface / Stability of Protein / バイオインフォマティクス / 立体構造基本型 / CASP5 / Cyanobacterium genome / バキュロウイルス / Het PDB-Navi / 電子回折 / 分子表面 / 確率的アラインメント法 / Hydrophobic cluster / アブイニシオ Less

Mechanism of signal transduction regulated by the interactions to cell membranePrincipal InvestigatorOngoing
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2016 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Yokohama City University
アロステリック薬設計にむけた網羅的サンプリングPrincipal InvestigatorOngoing
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2016 – 2017
- Research Category
  
  Grant-in-Aid for Challenging Exploratory Research
- Research Field
  
  Biophysics
- Research Institution
  Yokohama City University
The role of the encounter complexes studied by molecular simulations of the protein complex formation processes.Principal Investigator
- Principal Investigator
  
  AKINORI Kidera
- Project Period (FY)
  2011 – 2014
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  Biophysics
- Research Institution
  Yokohama City University
タンパク質側鎖の平衡揺らぎと基質結合に伴う応答的運動Principal Investigator
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2009 – 2010
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Science and Engineering
- Research Institution
  Yokohama City University
Identification of the relationship between protein structural changes and ligand binding on the basis of 3D protein structuresPrincipal Investigator
- Principal Investigator
  
  KIDERA Akinori
- Project Period (FY)
  2008 – 2010
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Yokohama City University
分子シミュレーションによる膜タンパク質の機能的ダイナミクスの研究Principal Investigator
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2007 – 2008
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Yokohama City University
分子シミュレーションによる膜タンパク質の機能的ダイナミクスの研究Principal Investigator
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2005 – 2006
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Yokohama City University
分子シミュレーションによる蛋白質フォールディング・分子認識機構の解明
- Principal Investigator
  
  IKEGUCHI Mitsunori
- Project Period (FY)
  2003 – 2007
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Science and Engineering
- Research Institution
  Yokohama City University
P型イオンポンプによる能動輪送機構の構造的解明
- Principal Investigator
  
  豊島近
- Project Period (FY)
  2002 – 2006
- Research Category
  
  Grant-in-Aid for Creative Scientific Research
- Research Institution
  The University of Tokyo
Study of Vibrational Energy Transfer in ProteinsPrincipal Investigator
- Principal Investigator
  
  KIDERA Akinori
- Project Period (FY)
  2002 – 2003
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Physical chemistry
- Research Institution
  Yokohama City University
水チャネルの選択性とその制御機構の解明
- Principal Investigator
  
  MITSUOKA Kaoru
- Project Period (FY)
  2001 – 2004
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  National Institute of Advanced Industrial Science and Technology
  Kyoto University
蛋白質フォールディング研究の企画調査
- Principal Investigator
  
  KUWAJIMA Kunihiro
- Project Period (FY)
  2001
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Biophysics
- Research Institution
  The University of Tokyo
Prediction of structure and function of protein complexesPrincipal Investigator
- Principal Investigator
  
  KIDERA Akinori
- Project Period (FY)
  2001 – 2004
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Yokohama City University
Free-R因子を上げずにより詳細な蛋白質モデルを構築するための結晶構造精密化法Principal Investigator
- Principal Investigator
  
  木寺詔紀
- Project Period (FY)
  2000
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (A)
- Review Section
  
  Biological Sciences
- Research Institution
  Kyoto University
Structural and Informatics Basis of Channel Protein Interactions
- 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
the maintenance and circulation of protein higher-order structural information and the evaluation of prediction information
- Principal Investigator
  
  GO Mitiko
- Project Period (FY)
  2000 – 2002
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Nagoya University
Decoding of genome function and evolution based on the 3D structures of proteins
- Principal Investigator
  
  GO Mitiko
- Project Period (FY)
  2000 – 2004
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Nagahama Institute of Bio-Science and Technology
  Nagoya University
プロテオーム時代の計算情報生物学
- Principal Investigator
  
  GO Mitiko
- Project Period (FY)
  1999
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Research Field
  
  Biophysics
- Research Institution
  Nagoya University
Energy Transfer in a Protein Molecule: From Chemical Reaction to Structural ChangePrincipal Investigator
- Principal Investigator
  
  KIDERA Akinori
- Project Period (FY)
  1999 – 2001
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Yokohama City University
  Kyoto University
Administration of reseaches on principles of protein architecture
- Principal Investigator
  
  GO Nobuhiro
- Project Period (FY)
  1997 – 1998
- Research Category
  
  Grant-in-Aid for international Scientific Research
- Research Field
  
  Biophysics
- Research Institution
  KYOTO UNIVERSITY
Program System for Protein Electron CrystallographyPrincipal Investigator
- Principal Investigator
  
  KIDERA Akinori
- Project Period (FY)
  1997 – 1999
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  KYOTO UNIVERSITY
Protein structure, comparison, prediction, and design
- Principal Investigator
  
  GO Nobuhiro, 野口俊之
- Project Period (FY)
  1995 – 1999
- Research Category
  
  重点領域研究
- Research Institution
  KYOTO UNIVERSITY
  Nagoya University
Administration of researches on principles of protein architecture
- Principal Investigator
  
  GO Nobuhiro
- Project Period (FY)
  1995 – 1999
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (A).
- Research Institution
  KYOTO UNIVERSITY
タンパク質立体構造の安定性・ダイナミックス・折れたたみ機構
- Principal Investigator
  
  YUTANI Katsuhide
- Project Period (FY)
  1995 – 1998
- Research Category
  
  重点領域研究
- Research Institution
  OSAKA UNIVERSITY

[Book] 岩波講座　計算科学　4巻　計算と生命2012
- Author(s)
  木寺詔紀
- Total Pages
  59
- Publisher
  岩波書店
- Data Source
  KAKENHI-PROJECT-23247027
[Book] 超多自由度系の新しい科学 3.1章生体分子の計算機シミュレーション2010
- Author(s)
  木寺詔紀(分担)
- Total Pages
  40
- Publisher
  共立出版
- Data Source
  KAKENHI-PROJECT-20370063
[Book] Proteins : Energy Heat and Signal Flow2009
- Author(s)
  木寺詔紀, 森次圭, 松永泰佑, 藤崎弘士
- Total Pages
  20
- Publisher
  Taylor and Francis/CRC Press
- Data Source
  KAKENHI-PROJECT-20370063
[Book] タンパク質科学〜構造・物性・機能〜第5章ダイナミクス(2)構造ダイナミクスの理論とシミュレーション2005
- Author(s)
  木寺詔紀, 池口満徳
- Publisher
  化学同人
- Data Source
  KAKENHI-PROJECT-15076209
[Book] あなたにも役立つバイオインフォマティクス2002
- Author(s)
  木寺詔紀(分担執筆)
- Total Pages
  136
- Publisher
  共立出版
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Book] 生物物理学とはなにか-未解決問題への挑戦-2000
- Author(s)
  木寺詔紀(分担執筆)
- Total Pages
  308
- Publisher
  共立出版
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Free energy landscape of protein-ligand interactions coupled with protein structural changes2017
- Author(s)
  K. Moritsugu, T. Terada, A. Kidera
- Journal Title
  
  J. Phys. Chem. B
  
  Volume : 121 Pages : 731-740
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-16H04780, KAKENHI-PROJECT-16K14714, KAKENHI-PROJECT-15K18520
[Journal Article] Itinerary profiling to analyze a large number of protein-folding trajectories2016
- Author(s)
  M. Ota, M. Ikeguchi, and A. Kidera
- Journal Title
  
  Biophysics and Physicobiology
  
  Volume : 13 Pages : 295-304
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16H04780, KAKENHI-PROJECT-16K14714
[Journal Article] Multiscale enhanced sampling for protein systems: An extension via adiabatic separation2016
- Author(s)
  K. Moritsugu, T. Terada, A. Kidera
- Journal Title
  
  Chem. Phys. Lett.
  
  Volume : 661 Pages : 279-283
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-16H04780, KAKENHI-PROJECT-16K14714, KAKENHI-PROJECT-15K18520
[Journal Article] Hierarchical description and extensive classification of protein structural changes by Motion Tree2014
- Author(s)
  Koike, R., Ota, M., and Kidera, A.
- Journal Title
  
  J. Mol. Biol
  
  Volume : 426 Pages : 752-762
- Peer Reviewed
- Data Source
  KAKENHI-ORGANIZER-21113001, KAKENHI-PLANNED-21113007, KAKENHI-PROJECT-23247027
[Journal Article] Multiscale enhanced sampling driven by multiple coarse-grained models2014
- Author(s)
  K. Moritsugu, T. Terada, and A. Kidera
- Journal Title
  
  Chemical Physics Letters
  
  Volume : 616-617 Pages : 20-24
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-23247027, KAKENHI-PROJECT-25840060
[Journal Article] Energy landscape of all-atom protein-protein interactions revealed by multiscale enhanced sampling2014
- Author(s)
  K. Moritsugu, T. Terada, and A. Kidera
- Journal Title
  
  PLOS Comput. Biol.
  
  Volume : 10
- Open Access / Acknowledgement Compliant / Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23247027, KAKENHI-PROJECT-25840060
[Journal Article] Solvent friction effects propagate over the entire protein molecule through low-frequency collective modes2014
- Author(s)
  K. Moritsugu, A. Kidera, and J. Smith
- Journal Title
  
  J. Phys. Chem. B
  
  Volume : 118 Pages : 8559-8565
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-23247027
[Journal Article] Multiscale enhanced path sampling based on the Onsager-Machlup action: Application to a model polymer2013
- Author(s)
  H. Fujisaki, M. Shiga, K. Moritsugu, A. Kidera
- Journal Title
  
  Journal of Chemical Physics
  
  Volume : 139 Pages : 0541171-9
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22750023, KAKENHI-PROJECT-23247027, KAKENHI-PROJECT-23540454, KAKENHI-PROJECT-23570198, KAKENHI-PROJECT-25840060
[Journal Article] The conserved Arg241-Glu439 salt bridge determines flexibility of the inositol 1,4,5-trisphosphate receptor binding core in the ligand-free state2013
- Author(s)
  Y. Ida and A. Kidera
- Journal Title
  
  Proteins: Structure, Function, and Bioinformatics
  
  Volume : 81 Pages : 1699-1708
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23247027
[Journal Article] Disorder-to-order transition of an intrinsically disordered protein sortase revealed by multiscale enhanced sampling2012
- Author(s)
  K.Moritsugu, T.Terada, A.Kidera
- Journal Title
  
  J.Am.Chm.Soc.
  
  Volume : 134 Pages : 7094-7101
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23247027
[Journal Article] Comparative molecular dynamics simulations study of crystal environment effect on protein structure2012
- Author(s)
  T.Terada, A.Kidera
- Journal Title
  
  J.Phys.Chem.B.
  
  Volume : 116(in press)
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23247027
[Journal Article] Classification and annotation of the relationship between protein structural change and ligand binding2011
- Author(s)
  T. Amemiya, R. Koike, S. Fuchigami, M. Ikeguchi, A. Kidera
- Journal Title
  
  J.Mol.Biol. 408
  
  Pages : 568-584
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Protein Functional Motions : Basic Concepts and Computational Methodologies2011
- Author(s)
  S. Fuchigami, H. Fujisaki, Y. Matsunaga, A. Kidera
- Journal Title
  
  Adv.Chem.Phys. 145
  
  Pages : 35-82
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Classification and annotation of the relationship between protein structural change and ligand binding2011
- Author(s)
  T.Amemiya, R.Koike, S.Fuchigami, M.Ikeguchi, A.Kidera
- Journal Title
  
  J.Mol.Biol.
  
  Volume : 408 Pages : 568-584
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] rotein Functional Motions : Basic Concepts and Computational Methodologies2011
- Author(s)
  S.Fuchigami, H.Fujisaki, Y.Matsunaga, A.Kidera
- Journal Title
  
  Adv.Chem.Phys.
  
  Volume : 145 Pages : 35-82
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Normal mode analysis of protein dynamics in a non-Eckart frame2010
- Author(s)
  S. Fuchigami, S. Omori, M. Ikeguchi, A. Kidera
- Journal Title
  
  J.Chem.Phys. 132
  
  Pages : 1041091-7
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Latent dynamics of a protein molecule observed in dihedral angle space2010
- Author(s)
  S. Omori, S. Fuchigami, M. Ikeguchi, A. Kidera
- Journal Title
  
  J.Chem Phys 132
  
  Pages : 1151031-7
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Molecular modeling of the HAMP domain of sensory rhodopsin II transducer from Natronomonas pharaonis2010
- Author(s)
  K.Nishikata, M.Ikeguchi, A.Kidera
- Journal Title
  
  BIOPHYSICS 6
  
  Pages : 27-36
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107523
[Journal Article] Scalable free energy calculation of proteins via multiscale essential sampling2010
- Author(s)
  K.Moritsugu, T.Terada, A.Kidera
- Journal Title
  
  J.Chem.Phys.
  
  Volume : 133
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107523
[Journal Article] Onsager-Machlup action based path sampling and its combination with replica exchange for diffusive and multiple pathways2010
- Author(s)
  H.Fujisaki, M.Shiga, A.Kidera
- Journal Title
  
  J.Chem.Phys. 132
  
  Pages : 1341011-8
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107523
[Journal Article] Latent dynamics of a protein molecule observed in dihedral angle space2010
- Author(s)
  S.Omori, S.Fuchigami, M.Ikeguchi, A.Kidera
- Journal Title
  
  J.Chem.Phys. 132
  
  Pages : 1151031-7
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Normal mode analysis of protein dynamics in a non-Eckart frame2010
- Author(s)
  S.Fuchigami, S.Omori, M.Ikeguchi, A.Kidera
- Journal Title
  
  J.Chem.Phys. 132
  
  Pages : 1041091-7
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Linear response theory in dihedral angle space for protein structural change upon ligand binding2009
- Author(s)
  S. Omori, S. Fuchigami, M. Ikeguchi, A. Kidera
- Journal Title
  
  J.Comput.Chem. 30
  
  Pages : 2602-2608
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Multivariate Frequency Domain Analysis of Protein Dynamics I : Multitaper Method and Varimax Rotation2009
- Author(s)
  松永康佑、木寺詔紀
- Journal Title
  
  Journal of Chemical Physics 130
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19036028
[Journal Article] Linear response theory in dihedral angle space for protein structural change upon ligand binding2009
- Author(s)
  大森聡, 渕上壮太郎, 池口満徳, 木寺詔紀
- Journal Title
  
  Journal of Computational Chemistry 30(印刷中)
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-20370063
[Journal Article] Water-mediated interactions between DNA and PhoB DNA-binding/transactivation domain as determined by NMR and restrained molecular dynamics in explicit water environment2008
- Author(s)
  T.Yamane, H.Okamura, M.Ikeguchi, Y.Nishimura and A.Kidera
- Journal Title
  
  Proteins:Structure, Function, and Bioinformatics 71
  
  Pages : 1970-1983
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19036028
[Journal Article] Water-mediated interactions between DNA and PhoB DNA-binding/trans activationdomain:NMR-restrained molecular dynamics in explicit water environment2008
- Author(s)
  T.Yamane, H.Okamura, M.Ikeguchi, Y.Nishimura, A.Kidera
- Journal Title
  
  Proteins:Structure, Function, and Bioinformatics 71
  
  Pages : 1970-1983
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Simulation of charge effects on density maps obtained by high-resolution electron crystallography2007
- Author(s)
  T.Hirai, K.Mitsuoka, A.Kidera and Y.Fujiyoshi
- Journal Title
  
  J.Electron Microscopy 56
  
  Pages : 131-140
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19036028
[Journal Article] Unfolding athways of Goat α-Lactalbumin as revealed in multiple alignment of molecular dynamics trajectories2007
- Author(s)
  T.Oroguchi, M.Ikeguchi, M.Ota, K.Kuwajima and A.Kidera
- Journal Title
  
  J.Mol.Biol. 371
  
  Pages : 1354-1364
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19036028
[Journal Article] Water transport in aquaporins:osmotic permeability matrix analysis of molecular dynamics simulations2007
- Author(s)
  M.Hashido, A.Kidera, M.Ikeguchi
- Journal Title
  
  Biophysical Journal 93
  
  Pages : 373-385
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Nickel binding to NikA : an additional binding site reconciles spectroscopy, calorimetry and crystallography.2007
- Author(s)
  C.Addy, C.Ohara, M.Kawai, F.Kidera, A.Ikeguchi, M.Fuchigami, S.Osawa, M.Shimada, I.Park, S.-Y.Tame, J.R.H., Heddle, J.G.
- Journal Title
  
  Acta Crystallographica Section D : Biological Crystallography D63
  
  Pages : 221-229
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Unfolding pathways of goat a-lactalbumin as revealed in multiple align ment of molecular dynamics trajectories2007
- Author(s)
  T.Oroguchi, M.Ikeguchi, M.Ota, K.Kuwajima, A.Kidera
- Journal Title
  
  Journal of Molecular Biology 371
  
  Pages : 777-784
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Probabilistic alignment detects remote homology in a pair of protein sequences without using additional information of homologous sequences.2007
- Author(s)
  R.Koike, K.Kinoshita, A.Kidera
- Journal Title
  
  Proteins : Structure, Function, and Bioinformatics 66
  
  Pages : 655-663
- Data Source
  KAKENHI-PROJECT-17048024
[Journal Article] Water transport in aquaporins : Osmotic permeability matrix analysis of molecular dynamics simulations2007
- Author(s)
  M.Hashido, A.Kidera, M.Ikeguchi
- Journal Title
  
  Biophysical Journal 92(In press)
- Data Source
  KAKENHI-PROJECT-17048024
[Journal Article] 蛋白質構造変化の源はゆらぎ-分子結合に伴う蛋白質の立体構造変化の理論-2006
- Author(s)
  池口満徳, 木寺詔紀
- Journal Title
  
  蛋白質・核酸・酵素 51・3
  
  Pages : 268-273
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] タンパク質構造変化の理論 : 平衡ゆらぎと線形応答理論2006
- Author(s)
  池口満徳, 木寺詔紀
- Journal Title
  
  生物物理 46
  
  Pages : 275-278
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Protein Structural Change upon Ligand Binding : Linear Response Theory2005
- Author(s)
  M.Ikeguchi, J.Ueno, M.Sato, A.Kidera
- Journal Title
  
  Phys.Rev.Lett. 94
  
  Pages : 78102-78102
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] Protein structural change upon ligand binding : Linear response theory2005
- Author(s)
  M.Ikeguchi, J.Ueno, M.Sato, A.Kidera
- Journal Title
  
  Phys.Rev.Lett. 94
  
  Pages : 78102-78102
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Atomically detailed description of the unfolding of α-lactalbumin by the combined use of experiments and simulations2005
- Author(s)
  Oroguchi, T., Ikeguchi, M., Saeki, K., Kamagata, K., Sawano, Y., Tanokura, M., Kidera, A.Kuwajima
- Journal Title
  
  Journal of Molecular Biology 354
  
  Pages : 164-172
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Comparative simulations of aquaporin family : AQP1, AQPZ, AQP0 and GlpF2005
- Author(s)
  Hashido, M., Ikeguchi, M., Kidera, A.
- Journal Title
  
  FEBS Letters 579
  
  Pages : 5549-5552
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Protonation of the acidic residues in the transmembrane cation-binding sites of the Ca^<2+>-pump2005
- Author(s)
  Sugita, Y., Miyashita, N., Ikeguchi, M., Kidera, A., Toyoshima, C.
- Journal Title
  
  The Journal of American Chemical Society 127
  
  Pages : 6150-6151
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Probabilistic Description of Protein Alignments for Sequences and Structures2004
- Author(s)
  R.Koike, K.Kinoshita, A.Kidera
- Journal Title
  
  Proteins : Structure, Function, and Bioinformatics 56
  
  Pages : 157-166
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] Protein motions represented in moving normal mode coordinates2004
- Author(s)
  K.Moritsugu, A.Kidera
- Journal Title
  
  J.Phys.Chem.B 108
  
  Pages : 3890-3898
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] Phylogeny of protein-folding trajectories reveals a unique pathway to native structure2004
- Author(s)
  Ota, M., Ikeguchi, M., Kidera, A.
- Journal Title
  
  Proc.Natl.Acad.Sci.USA 101
  
  Pages : 17658-17663
- Data Source
  KAKENHI-PROJECT-15076209
[Journal Article] Probabilistic description of protein alignments for sequences and structures2004
- Author(s)
  Koike, R., Kinoshita, K., Kidera, A.
- Journal Title
  
  Proteins : Structure, Function, and Bioinformatics 56
  
  Pages : 157-166
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] Protein motions represented in moving normal mode coordinates2004
- Author(s)
  Moritsugu, K., Kidera, A.
- Journal Title
  
  J.Phys.Chem. B. 108
  
  Pages : 3890-3898
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] Phylogeny of protein folding trajectories reveals a unique pathway to native structure2004
- Author(s)
  M.Ota, M.Ikeguchi, A.Kidera
- Journal Title
  
  Proc.Natl.Acad.Sci.USA 101
  
  Pages : 17658-17663
- Data Source
  KAKENHI-PROJECT-13208010
[Journal Article] A method for evaluating multicanonical potential function without iterative refinement : Application to conformational sampling of a globular protem in water2003
- Author(s)
  Terada, T., Matsuo, Y., Kidera, A.
- Journal Title
  
  Journal of Chemical Physics 118(9)
  
  Pages : 4306-4311
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] 蛋白質機能発現のダイナミクス的側面2003
- Author(s)
  木寺詔紀, 池口満徳
- Journal Title
  
  物理学会誌 58(4)
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Ring and zipper formation is the key to understanding the structural variety in all beta proteins2003
- Author(s)
  Koike, R., Kinoshita, K., Kidera, A.
- Journal Title
  
  FEBS Letters 533 (1-3)
  
  Pages : 9-13
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] What is biophysics ; a challenge to unsolved issues2003
- Author(s)
  Kidera, A.
- Journal Title
  
  Kyoritsu Shuppan Co.Ltd
  
  Pages : 308-308
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] A method for evaluating multicanonical potential function without iterative refinement : Application to conformational sampling of a globular protein in water2003
- Author(s)
  Terada, T., Matsuo, Y., Kidera, A.
- Journal Title
  
  Journal of Chemical Physics 118 (9)
  
  Pages : 4306-4311
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] An aspect of dynamics in expression of protein function2003
- Author(s)
  Kidera, A., Ikeguchi, M.
- Journal Title
  
  Butsuri Gakkai-shi. 58(4)
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Generalized form of the conserved quantity in constant-temperature molecular dynamics2002
- Author(s)
  Terada, T., Kidera, A.
- Journal Title
  
  J.Chem.Phys. 116(1)
  
  Pages : 33-41
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] A generalized form of the conserved quantity in constant-temperature molecular dynamics2002
- Author(s)
  Terada T., Kidera A.
- Journal Title
  
  J.Chem.Phys. 116 (1)
  
  Pages : 33-41
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Nonlinear temperature dependence of the crystal structure of Lysozyme : Correlation between coordinate shifts and thermal factors2002
- Author(s)
  Joti, Y., Nakasako, M., Kidera, A., Go, N.
- Journal Title
  
  Acta Crystallographica Section D, Biological Crystallography 58(9)
  
  Pages : 1421-1432
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] A generalized form of the conserved quantity in constant-temperature molecular dynamics2002
- Author(s)
  Terada T., Kidera A.
- Journal Title
  
  J. Chem. Phys. 116(1)
  
  Pages : 33-41
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Generalized form of the conserved quantity in constant-temperature molecular dynamics2002
- Author(s)
  Terada, T., Kidera, A.
- Journal Title
  
  J. Chem. Phys. 116(1)
  
  Pages : 33-41
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Useful bioinformatics in your work2002
- Author(s)
  Kidera. A.
- Journal Title
  
  Kyoritsu Shuppan Co.Ltd.
  
  Pages : 136-136
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Nonlinear temperature dependence of the crystal structure of Lysozyme : Correlation between coordinate shifts and thermal factors2002
- Author(s)
  Joti, Y., Nakasako, M.Kidera, A., Go, N.
- Journal Title
  
  Acta Crystallographica Section D, Biological Crystallography 58(9)
  
  Pages : 1421-1432
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Protein dynamics : focusing on bacteriorhodopsin2001
- Author(s)
  Kidera, A.
- Journal Title
  
  Kagaku H56 (9)
  
  Pages : 70-71
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Knowing similarity in protein 3D structure2001
- Author(s)
  Kidera.A.
- Journal Title
  
  Tanpakushitsu Kakusan Kouso 46(15)
  
  Pages : 2198-2204
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Environmental influence on electron scattering from a molecule2001
- Author(s)
  Yamashita, H., Kidera, A.
- Journal Title
  
  Acta Cryst.Sect A57(pt 5)
  
  Pages : 518-525
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Dynamical transition of myoglobin in a crystal : comparative studies of X-ray crystallography and Mossbauer spectroscopy2001
- Author(s)
  Chong, S.-H., Joti, Y., Kidera.A., Go, N., Ostermann, A., Gassmann, A., Parak, F.
- Journal Title
  
  European Biophysics J. 30(5)
  
  Pages : 319-329
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Sampling efficiency of molecular dynamics and Monte Carlo Method in protein simulation2001
- Author(s)
  Yamashita, H., Endo, S., Wako, H., Kidera, A.
- Journal Title
  
  Chem.Phys.Lett. 342(3-4)
  
  Pages : 382-386
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Environmental influence on electron scattering from a molecule2001
- Author(s)
  Yamashita, H., Kidera, A.
- Journal Title
  
  Acta Cryst. Sect A57(pt 5)
  
  Pages : 518-525
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] 立体構造の類似性を知る2001
- Author(s)
  木寺詔紀
- Journal Title
  
  蛋白質核酸酵素 46(15)
  
  Pages : 2198-2204
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Sampling efficiency of molecular dynamics and Monte Carlo Method in protein simulation2001
- Author(s)
  Yamashita, H., Endo, S., Wako, H., Kidera, A.
- Journal Title
  
  Chem. Phys. Lett. 342(3-4)
  
  Pages : 382-386
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] タンパク質のダイナミクス-バクテリオロドプシンを中心にして2001
- Author(s)
  木寺詔紀
- Journal Title
  
  化学 H56(9)
  
  Pages : 70-71
- Description
  「研究成果報告書概要(和文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Journal Article] Human ABCA1 contains a large amino-terminal extracellular domain homologous to an epitope of Sjogren's syndrome2001
- Author(s)
  Tanaka, A., Ikeda, Y., Abe-Dohmae, S., Arakawa.R., Sadanami, K., Kidera, A., Nakagawa, S., Nagase, T., Aoki, R., Kioka, N., Amachi, T., Yokoyama, S., Ueda, K.
- Journal Title
  
  Biochem.Biophys.Res.Commun. 283 (5)
  
  Pages : 1019-1025
- Description
  「研究成果報告書概要(欧文)」より
- Data Source
  KAKENHI-PROJECT-12207002
[Presentation] Structual dynamics of MEK1 activation through phosphorylation2016
- Author(s)
  M. Ando, K. Moritsugu, A. Kidera
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場(茨城県つくば市）
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16H04780
[Presentation] Structural basis for activation of EGFR kinase domain at atomistic resolution revealed by multiscale enhanced sampling2016
- Author(s)
  K. Moritsugu, T. Terada, A. Kidera
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場(茨城県つくば市）
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16H04780
[Presentation] Mechanism of the complex formation of HP1αCD/histone H3 tail revealed by the replica-exchange molecular dynamics simulations2016
- Author(s)
  S. Omori, N. Hashiguchi, K. Moritsugu, Y. Nishimura, A. Kidera
- 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-16H04780
[Presentation] Large-scale configurational sampling of K63-linked di-ubiquitin complexed with TAB22016
- Author(s)
  K. Inariyama, H. Nishi, K. Moritsugu, A. Kidera
- 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
  2016-11-27
- Data Source
  KAKENHI-PROJECT-16H04780
[Presentation] Structual dynamics of MEK1 activation through phosphorylation2016
- Author(s)
  M. Ando, K. Moritsugu, A. Kidera
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場(茨城県つくば市）
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16K14714
[Presentation] Structural basis for activation of EGFR kinase domain at atomistic resolution revealed by multiscale enhanced sampling2016
- Author(s)
  K. Moritsugu, T. Terada, A. Kidera
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議場(茨城県つくば市）
- Year and Date
  2016-11-26
- Data Source
  KAKENHI-PROJECT-16K14714
[Presentation] Large-scale configurational sampling of K63-linked di-ubiquitin complexed with TAB22016
- Author(s)
  K. Inariyama, H. Nishi, K. Moritsugu, A. Kidera
- 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
  2016-11-27
- Data Source
  KAKENHI-PROJECT-16K14714
[Presentation] Mechanism of the complex formation of HP1αCD/histone H3 tail revealed by the replica-exchange molecular dynamics simulations2016
- Author(s)
  S. Omori, N. Hashiguchi, K. Moritsugu, Y. Nishimura, A. Kidera
- 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-16K14714
[Presentation] Structural ensemble of protein encounter complex revealed by Multiscale Essential Sampling2013
- Author(s)
  Satoshi Omori, Kei Moritsugu, Akinori Kidera
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  京都国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Hierarchical description and extensive classification of protein structural changes by Motion Tree2013
- Author(s)
  Ryotaro Koike, Motonori Ota, Akinori Kidera
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  京都国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Motion Tree analysis of the multidrug transporter AcrB2013
- Author(s)
  Tsutomu Yamane, Ryotaro Koike, Motonori Oota, Satoshi Murakami, Akinori Kidera, Mitsunori Ikeguchi
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  京都国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] The effects of substrate binding in ABC transporter: A simulation study2013
- Author(s)
  Kouki Yamada, Hiroaki Kato, Akinori Kidera
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  京都国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] 全原子モデル- 粗視化モデル連成法を用いた蛋白質複合体形成過程の分子シミュレーション2013
- Author(s)
  大森聡、森次圭、木寺詔紀
- Organizer
  第12回日本蛋白質科学会年会
- Place of Presentation
  とりぎん文化会館
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Molecular dynamics simulation study of Lys48-linked diubiquitin in compact conformation2012
- Author(s)
  Akinori Kidera
- Organizer
  日本生物物理学会第50回年会
- Place of Presentation
  名古屋大学
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] HAMPドメインの分子モデルを結合したSRII-HtrII複合体の比較シミュレーションにより示唆された基底状態とM中間体の差異2012
- Author(s)
  木寺詔紀
- Organizer
  日本蛋白質科学会第12回年会
- Place of Presentation
  名古屋国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] 結合型ジユビキチンのマイクロ秒スケールの分子動力学シミュレーション2012
- Author(s)
  木寺詔紀
- Organizer
  日本蛋白質科学会第12回年会
- Place of Presentation
  名古屋国際会議場
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Differences between the ground state and the Mintermediateof Sensory Rhodopsin II-Transducer complex revealed by comparative simulations2012
- Author(s)
  Akinori Kidera
- Organizer
  日本生物物理学会第50回年会
- Place of Presentation
  名古屋大学
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Multiscale enhanced sampling simulation for protein-protein interactions2011
- Author(s)
  Kei Moritsugu, Akinori Kidera
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学
- Year and Date
  2011-09-16
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] Database analysis of protein structural changes upon ligand binding2010
- Author(s)
  雨宮崇之, 小池亮太郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  仙台
- Year and Date
  2010-09-20
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] Multiscale enhanced sampling simulation for intrinsic disorder protein, sortase A2010
- Author(s)
  Kei Moritsugu, Akinori Kidera
- Organizer
  日本生物物理学会年会
- Place of Presentation
  東北大学
- Year and Date
  2010-09-21
- Data Source
  KAKENHI-PUBLICLY-21107523
[Presentation] Database analysis of protein structural changes upon ligand binding2010
- Author(s)
  T.Amemiya, R.Koike, S.Fuchigami, M.Ikeguchi, A.Kidera
- Organizer
  日本生物物理学会年会
- Place of Presentation
  東北大学
- Year and Date
  2010-09-20
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] Compensating dynamics of a protein molecule observed in dihedral angle space2010
- Author(s)
  大森聡, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  仙台
- Year and Date
  2010-09-22
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] Principal component analysis of proteins in dihedral angle space2009
- Author(s)
  大森聡, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  第47回日本生物物理学会年会
- Place of Presentation
  徳島
- Year and Date
  2009-10-30
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] 低分子リガンド相互作用に関わるタンパク質立体構造変化のデータベース解析2009
- Author(s)
  雨宮崇之、小池亮太郎、渕上壮太郎、池口満徳、木寺詔紀
- Organizer
  第9回日本蛋白質科学会年会
- Place of Presentation
  熊本
- Year and Date
  2009-05-22
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] 球状蛋白質構造ゆらぎの2面角系主成分分析2009
- Author(s)
  大森聡、渕上壮太郎、池口満徳、木寺詔紀
- Organizer
  第9回日本蛋白質科学会年会
- Place of Presentation
  熊本
- Year and Date
  2009-05-20
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] Independent component analysis of equilibrium fluctuations in proteins2009
- Author(s)
  Y Naritomi, S Fuchigami, M Ikeguchi, A Kidera
- Organizer
  第47回日本生物物理学会年会
- Place of Presentation
  アスティ徳島
- Year and Date
  2009-10-31
- Data Source
  KAKENHI-PUBLICLY-21107523
[Presentation] Molecular dynamics analysis of a HAMP domain : A four-helix bundle structure satisfies the data of electron paramagnetic resonance2009
- Author(s)
  K Nishikata, S Fuchigami, M Ikeguchi, A Kidera
- Organizer
  第47回日本生物物理学会年会
- Place of Presentation
  アスティ徳島
- Year and Date
  2009-10-30
- Data Source
  KAKENHI-PUBLICLY-21107523
[Presentation] 低分子リガンド相互作用に関わるタンパク質立体構造変化のデータベース解析2009
- Author(s)
  雨宮崇之, 小池亮太郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- 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
- Year and Date
  2009-05-22
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] 球状蛋白質構造ゆらぎの2面角系主成分分析2009
- Author(s)
  大森聡, 渕上壮太郎, 池口満徳, 木寺詔紀
- 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
- Year and Date
  2009-05-20
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] 低分子リガンド結合に関わるタンパク質構造変化のデータベース解析:結晶場の影響2008
- Author(s)
  雨宮崇之、小池亮太郎、渕上壮太郎、池口満徳、木寺詔紀
- Organizer
  第8回日本蛋白質科学会年会
- Place of Presentation
  東京
- Year and Date
  2008-06-10
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] タンパク質の多量体形成で観察される構造変化2008
- Author(s)
  平山裕之、雨宮崇之、小池亮太郎、渕上壮太郎、池口満徳、木寺詔紀
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡
- Year and Date
  2008-12-05
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] 蛋白質構造ゆらぎの2面角系主成分分析2008
- Author(s)
  大森聡、渕上壮太郎、池口満徳、木寺詔紀
- Organizer
  第8回日本蛋白質科学会年会
- Place of Presentation
  東京
- Year and Date
  2008-06-10
- Data Source
  KAKENHI-PROJECT-20370063
[Presentation] Water-mediated interactions between DNA and the PhoB DNA binding/transactivation domain2008
- Author(s)
  T.Yaname, H.Okamura, M.Ikeguchi, Y.Nishimura, A.Kidera
- Organizer
  52st Annual Meeting of Biophysical Society
- Place of Presentation
  Long Beach,California
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] センサリーロドプシンII/トランスデューサー複合体のHAMPドメインのモデル構造 : 分子動力学計算2008
- Author(s)
  西方公郎、渕上壮太郎、池口満徳、木寺詔紀
- 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-19036028
[Presentation] IP3レセプター・リガンド結合コアとその変異体のIP3非結合時分子動力学計算2008
- Author(s)
  井田洋一、渕上壮太郎、池口満徳、木寺詔紀
- 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-19036028
[Presentation] センサリーロドプシンII/トランスデューサー複合体の分子動力学研究2008
- Author(s)
  西方公郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- 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-19036028
[Presentation] 低分子リガンド結合に関わるタンパク質構造変化のデータペース解析 : 結晶場の影響2008
- Author(s)
  雨宮崇之, 小池亮太郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- 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-20370063
[Presentation] Motion Tree法による蛋白質構造変化の階層的記述2008
- Author(s)
  小池亮太郎, 太田元規, 木寺詔紀
- 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-20370063
[Presentation] センサリーロドプシンIIトランスデューサーHAMPドメインの分子動力学研究2007
- Author(s)
  西方公郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  第7回日本蛋白質科学会年会
- Place of Presentation
  パシフイコ横浜
- Year and Date
  2007-12-23
- Data Source
  KAKENHI-PROJECT-19036028
[Presentation] センサリーロドプシンIIトランスデューサーHAMPドメインの分子動力学研究2007
- Author(s)
  西方公郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- 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
- Year and Date
  2007-05-24
- Data Source
  KAKENHI-PROJECT-19036028
[Presentation] IP3レセプター・リガンド結合コアのIP3非結合時分子動力学シミュレーション2007
- Author(s)
  井田洋一, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  第7回日本蛋白質科学会年会
- Place of Presentation
  パシフイコ横浜
- Year and Date
  2007-12-21
- Data Source
  KAKENHI-PROJECT-19036028
[Presentation] IP3レセプター・リガンド結合コアのIP3非結合時分子動力学シミュレーション2007
- Author(s)
  井田洋一, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本生物物理学会第45回年会
- Place of Presentation
  横浜
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] リガンド結合による蛋白質の構造変化の動的過程:時間依存の摂動による線形応答理論2007
- Author(s)
  成富佑輔, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本生物物理学会第45回年会
- Place of Presentation
  横浜
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] 線形応答理論による蛋白質構造変化の記述:内部座標系2007
- Author(s)
  大森聡, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本蛋白質科学会第7回年会
- Place of Presentation
  仙台
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] タンパク質立体構造変化における経路の多様性とメカニズム:アデニル酸キナーゼの場合2007
- Author(s)
  渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本蛋白質科学会第7回年会
- Place of Presentation
  仙台
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] 低分子リガンド結合に伴う構造変化のデータベース解析2007
- Author(s)
  雨宮崇之, 小池亮太郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本蛋白質科学会第7回年会
- Place of Presentation
  仙台
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] PhoBのDNA結合ドメインのダイナミクス解析2007
- Author(s)
  山根努, 岡村英保, 池口満徳, 木寺詔紀, 西村善文
- Organizer
  日本蛋白質科学会第7回年会
- Place of Presentation
  仙台
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] センサリーロドプシンIIトランスデューサーHAMPドメイン分子動力学研究2007
- Author(s)
  西方公郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本蛋白質科学会第7回年会
- Place of Presentation
  仙台
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] F型ATP合成酵素cリングの空孔に存在するリン脂質は何分子か?:分子動力学シミュレーションによる推定2007
- Author(s)
  渕上壮太郎, 中島恭子, 池口満徳, 木寺詔紀
- Organizer
  日本生物物理学会第45回年会
- Place of Presentation
  横浜
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] センソリーロドプシンIIトランスデューサーHAMPドメインの分子動力学研究2007
- Author(s)
  西方公郎, 渕上壮太郎, 池口満徳, 木寺詔紀
- Organizer
  日本生物物理学会第45回年会
- Place of Presentation
  横浜
- Data Source
  KAKENHI-PROJECT-15076209
[Presentation] Ligand binding process at atomistic resolution revealed by multiscale enhanced sampling
- Author(s)
  Kei Moritsugu, Tohru Terada, Akinori Kidera
- 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 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-23247027
[Presentation] 全原子モデル-粗視化モデルの連成シミュレーションによる蛋白質複合体形成過程の解析
- Author(s)
  大森聡、森次圭、木寺詔紀
- Organizer
  第14回日本蛋白質科学会年会
- Place of Presentation
  ワークピア横浜
- Year and Date
  2014-06-25 – 2014-06-27
- Data Source
  KAKENHI-PROJECT-23247027

1. IKEGUCHI Mitsunori (60261955)

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2. KITAO Akio (30252422)

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KIDERA Akinori 木寺 詔紀

Research Projects

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Co-Researchers

Mechanism of signal transduction regulated by the interactions to cell membranePrincipal InvestigatorOngoing

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アロステリック薬設計にむけた網羅的サンプリングPrincipal InvestigatorOngoing

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The role of the encounter complexes studied by molecular simulations of the protein complex formation processes.Principal Investigator

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タンパク質側鎖の平衡揺らぎと基質結合に伴う応答的運動Principal Investigator

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Identification of the relationship between protein structural changes and ligand binding on the basis of 3D protein structuresPrincipal Investigator

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分子シミュレーションによる膜タンパク質の機能的ダイナミクスの研究Principal Investigator

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分子シミュレーションによる膜タンパク質の機能的ダイナミクスの研究Principal Investigator

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Study of Vibrational Energy Transfer in ProteinsPrincipal Investigator

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Prediction of structure and function of protein complexesPrincipal Investigator

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Free-R因子を上げずにより詳細な蛋白質モデルを構築するための結晶構造精密化法Principal Investigator

Principal Investigator

Project Period (FY)

KIDERA Akinori 木寺詔紀

[Book] 岩波講座　計算科学　4巻　計算と生命2012

[Book] 超多自由度系の新しい科学 3.1章生体分子の計算機シミュレーション2010