Takada Shoji 高田彰二

… Alternative Names

TAKADA Shoji 高田彰二

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Researcher Number	60304086
Other IDs
External Links
Affiliation (Current)	2026: 京都大学, 理学研究科, 教授
Affiliation (based on the past Project Information) *help	2020 – 2025: 京都大学, 理学研究科, 教授 2015 – 2018: 京都大学, 理学研究科, 教授 2016: 京都大学, 大学院理学研究科, 教授 2011 – 2015: 京都大学, 理学(系)研究科(研究院), 教授 2012: 京都大学, 大学院・理学研究科, 教授 … More 2010 – 2011: 京都大学, 理学研究科, 准教授 2007 – 2009: Kyoto University, 大学院・理学研究科, 准教授 2001 – 2006: 神戸大学, 理学部, 助教授 1999 – 2000: 神戸大学, 理学部, 講師 Less
Review Section/Research Field	Principal Investigator Biological Sciences / Science and Engineering / Biophysics / Biological Sciences / Science and Engineering / Basic Section 43040:Biophysics-related / Transformative Research Areas, Section (III) / Biophysics / Transition State Control Except Principal Investigator Physical chemistry / Bioinformatics/Life informatics
Keywords	Principal Investigator シミュレーション / 蛋白質 / 分子シミュレーション / 粗視化モデル / CASP / フォールディング / タンパク質 / 液液相分離 / ヌクレオソーム / クロマチン … More / 転写因子 / 大振幅ゆらぎ / SNARE / 立体構造予測 / 生体分子 / 構造予測 / Zスコア / 人工設計 / シナプス可塑性 / 転写制御 / 生体分子凝縮体 / アクチンフィラメント / 細胞骨格 / 分子動力学シミュレーション / εサブユニット / F型ATP合成酵素 / 粗視化シミュレーションクロマチン / CafeMol / 凝縮体 / OpenCafeMol / GPU計算 / 粗視化シミュレーション / 染色体ダイナミクス / SMCタンパク質 / ゲノムDNAの構造転移ダイナミクス / クロマチン構造転移ダイナミクス / ストリング法 / ヌクレオソームスライディング / マルコフ状態モデリング / マルコフ状態モデル / 遷移経路探索 / 生体分子シミュレーション / 計算生物物理 / エピジェネティック / リモデラー / パイオニア因子 / スライディング / ChIP-seq / マルチスケール / 分子認識 / DNA / 柔らかい / p53 / Ste5 / DnaA / ｐ53 / エネルギーランドスケープ / 天然変性 / APT加水分解 / 分子動力学 / ATP加水分解 / キネシン / クラッキング / インフルエンザ / ラフト / ベシクル発芽 / ベシクル融合 / 分子機械 / 生物物理 / 化学物理 / デノボ / SimFold / フラグメントアセンブリ法 / 膜蛋白質 / ネットワーク / ランドスケープ / シャペロニン / フラグメントアセンブリ / フラグメント組合せ法 / de novo予測 / プロテオーム / バイオテクノロジー / ゲノム / 2次構造予測 / βシート / レプリカ交換法 / 3本ヘリックス束 / 3本ヘリクッス束 / エネルギーランドスケープ理論 / 配列空間アニーリング / 3本へリックス束 / 遺伝子合成 / デザイン … More Except Principal Investigator 構造遍歴 / 生体分子 / 多時間相関関数 / 分子シミュレーション / 反応座標 / 動的構造 / 階層ダイナミクス / 構造変化動力学 / タンパク質 / 時計タンパク質 / 分子動力学 / 三時間相関関数 / 二次元寿命スペクトル / 時計タンパク質KaiC / 概日リズム / 構造変化 / 階層的動力学 / 比較モデリング法 / 分子性流体用積分方程式論 / フラグメントアセンブリ法 / 形態熱力学理論 / 積分方程式論 / 水和エントロピー / ケミカルシフト / 膜蛋白質 / エントロピー / α-ヘリックス / 自由エネルギー関数 / 水和 / 立体構造予測 / フォールディング / 蛋白質 Less

細胞骨格形成と相分離の共役機構の分子シミュレーション研究Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2025 – 2026
- Research Category
  
  Grant-in-Aid for Transformative Research Areas (A)
- Review Section
  
  Transformative Research Areas, Section (III)
- Research Institution
  Kyoto University
細胞内複雑環境下の相分離による生体分子凝縮体形成の生物物理Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2024 – 2026
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 43040:Biophysics-related
- Research Institution
  Kyoto University
Development of next-generation coarse-grained simulations towards analysis of cellular-scale assemblyPrincipal Investigator
- Principal Investigator
  
  Takada Shoji
- Project Period (FY)
  2021 – 2023
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 43040:Biophysics-related
- Research Institution
  Kyoto University
Multiscale Theories of Genome ModalityPrincipal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2020 – 2024
- Research Category
  
  Grant-in-Aid for Transformative Research Areas (A)
- Review Section
  
  Transformative Research Areas, Section (III)
- Research Institution
  Kyoto University
ヌクレオソーム動構造とそのエピジェネティック制御の分子シミュレーション研究Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2016 – 2017
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Kyoto University
Theoretical study on transition path search algorithms in complex biomolecular systemsPrincipal Investigator
- Principal Investigator
  
  TAKADA Shoji
- Project Period (FY)
  2016 – 2018
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Transition State Control
- Research Institution
  Kyoto University
クロマチン構造と共役した転写因子動態の分子シミュレーション研究Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2015 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Kyoto University
柔らかいタンパク質・DNA分子認識のマルチスケール計算研究Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2014 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Science and Engineering
- Research Institution
  Kyoto University
転写因子DNA探索のエネルギーランドスケープ理論：速度‐親和性パラドックスPrincipal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Biological Sciences
- Research Institution
  Kyoto University
Structural plasticity and functional integration of multi-functional and multi-domain proteins: From structures to systemsPrincipal Investigator
- Principal Investigator
  
  Takada Shoji
- Project Period (FY)
  2013 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  Biophysics
- Research Institution
  Kyoto University
Theoretical studies of conformation transition dynamics and functions of biomolecules
- Principal Investigator
  
  SAITO Shinji
- Project Period (FY)
  2013 – 2015
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Physical chemistry
- Research Institution
  Institute for Molecular Science
Ｆ型ＡＴＰ合成酵素のＦＩ複合体の構造、機能および選択性Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2013 – 2014
- Research Category
  
  Grant-in-Aid for JSPS Fellows
- Research Field
  
  Biophysics
- Research Institution
  Kyoto University
蛋白質の大振幅ゆらぎの理論解析：構造変化経路から天然変性までPrincipal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2011 – 2012
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Science and Engineering
- Research Institution
  Kyoto University
Construction of protein-structure prediction method based on liquid state theory
- Principal Investigator
  
  KINOSHITA Masahiro
- Project Period (FY)
  2010 – 2012
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Bioinformatics/Life informatics
- Research Institution
  Kyoto University
Simulation study of biomolecular motors: Structural analysis of regulation mechanisms of chemical reaction by motor movementsPrincipal Investigator
- Principal Investigator
  
  TAKADA Shoji
- Project Period (FY)
  2010 – 2012
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Kyoto University
蛋白質のレアな大振幅ゆらぎの理論解析:クラッキングの探索Principal Investigator
- Principal Investigator
  
  高田彰二
- 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
  Kyoto University
Molecular simulation study of membrane morphology change induced by proteinsPrincipal Investigator
- Principal Investigator
  
  TAKADA Shoji
- Project Period (FY)
  2007 – 2009
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Research Field
  
  Biophysics
- Research Institution
  Kyoto University
タンパク質のフォールディング理論、立体構造予測、及び分子設計Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2003 – 2007
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Science and Engineering
- Research Institution
  Kyoto University
  Kobe University
プロテオーム時代におけるタンパク質立体構造の第一原理的予測Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2002
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas
- Review Section
  
  Biological Sciences
- Research Institution
  Kobe University
プロテオーム時代におけるタンパク質立体構造の第一原理的予測Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2001
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (C)
- Review Section
  
  Biological Sciences
- Research Institution
  Kobe University
人工タンパク質の理論設計と合成Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2000 – 2001
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (A)
- Review Section
  
  Science and Engineering
- Research Institution
  Kobe University
プロテオーム時代におけるタンパク質立体構造の第一原理的予測Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  2000
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (C)
- Review Section
  
  Biological Sciences
- Research Institution
  Kobe University
人工タンパク質の理論設計と合成Principal Investigator
- Principal Investigator
  
  高田彰二
- Project Period (FY)
  1999
- Research Category
  
  Grant-in-Aid for Scientific Research on Priority Areas (A)
- Review Section
  
  Science and Engineering
- Research Institution
  Kobe University

[Book] 生物物理55(1)：計算科学と実験科学の組み合わせにより明らかになった多剤排出トランスポーターAcrBの分子メカニズム2015
- Author(s)
  村上聡、山根努、池口満徳、高田彰二
- Publisher
  日本生物物理学会
- Data Source
  KAKENHI-PROJECT-25251019
[Book] 生物物理55(1)：計算科学と実験科学の組み合わせにより明らかになった多剤排出トランスポーターAcrBの分子メカニズム2015
- Author(s)
  村上聡、山根努、池口満徳、高田彰二
- Publisher
  日本生物物理学会
- Data Source
  KAKENHI-PUBLICLY-26104517
[Book] 粗視化シミュレーションと実験科学, 1分子ナノバイオ計測2014
- Author(s)
  高田彰二、野地博幸編
- Publisher
  化学同人
- Data Source
  KAKENHI-PROJECT-25251019
[Book] 粗視化シミュレーションと実験科学, 1分子ナノバイオ計測2014
- Author(s)
  高田彰二、野地博幸編
- Publisher
  化学同人
- Data Source
  KAKENHI-PUBLICLY-26104517
[Book] タンパク質の立体構入門--基礎から構造バイオインフォマティクスへ--, 編集:藤博幸(2章タンパク質構造の物理化学,5章アミノ酸配列からの構造予測とデザイン,6 章分子シミュレーション的な技法)2010
- Author(s)
  高田彰二
- Total Pages
  81
- Publisher
  講談社
- Data Source
  KAKENHI-PROJECT-22370057
[Book] アンサンブルvol.12,No.2(ハミルトニアンレプリカ交換法)2010
- Author(s)
  高田彰二
- Total Pages
  4
- Publisher
  分子シミュレーション研究会
- Data Source
  KAKENHI-PROJECT-22370057
[Book] アンサンブルvol.12, No.2(ハミルトニアンレプリカ交換法)2010
- Author(s)
  高田彰二
- Total Pages
  4
- Publisher
  分子シミュレーション研究会、
- Data Source
  KAKENHI-PROJECT-22370057
[Book] タンパク質の立体構造入門-基礎から構造バイオインフォマティクスへ-(2章タンパク質構造の物理化学,5章アミノ酸配列からの構造予測とデザイン,6章分子シミュレーション的な技法)(編集:藤博幸)2010
- Author(s)
  高田彰二
- Total Pages
  81
- Publisher
  講談社
- Data Source
  KAKENHI-PROJECT-22370057
[Book] 生物物理vol.50,No.4(郷モデルの35年)2010
- Author(s)
  高田彰二
- Total Pages
  2
- Publisher
  日本生物物理学会
- Data Source
  KAKENHI-PROJECT-22370057
[Book] タンパク質の立体構造入門-基礎から構造バイオインフォマティクスへ-,編集:藤博幸(2章タンパク質構造の物理化学,5章アミノ酸配列からの構造予測とデザイン,6章分子シミュレーション的な技法)2010
- Author(s)
  高田彰二
- Total Pages
  81
- Publisher
  講談社
- Data Source
  KAKENHI-PUBLICLY-21107512
[Book] アンサンブルvol.12,No.2(ハミルトニアンレプリカ交換法)2010
- Author(s)
  高田彰二
- Total Pages
  4
- Data Source
  KAKENHI-PUBLICLY-21107512
[Book] 生物物理vol.50,No.4(郷モデルの35年)2010
- Author(s)
  高田彰二
- Total Pages
  2
- Publisher
  日本生物物理学会
- Data Source
  KAKENHI-PUBLICLY-21107512
[Book] 生物物理2010
- Author(s)
  高田彰二
- Total Pages
  2
- Publisher
  日本生物物理学会、
- Data Source
  KAKENHI-PROJECT-22370057
[Book] パリティ生体分子の計算機シミュレーション : 巨大システムへの挑戦ページ 51-522007
- Author(s)
  高田彰二
- Total Pages
  2
- Publisher
  丸善
- Data Source
  KAKENHI-PROJECT-15076207
[Book] タンパク質科学(後藤祐児、桑島邦博、谷澤克行編)2005
- Author(s)
  高田彰二
- Total Pages
  579
- Publisher
  化学同人
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Chromosomal domain formation by archaeal SMC, a roadblock protein, and DNA structure2025
- Author(s)
  Yamaura Kodai、Takemata Naomichi、Kariya Masashi、Osaka Ayami、Ishino Sonoko、Yamauchi Masataka、Tamura Tomonori、Hamachi Itaru、Takada Shoji、Ishino Yoshizumi、Atomi Haruyuki
- Journal Title
  
  Nature Communications
  
  Volume: 16 Issue: 1 Pages: 1312-1312
- DOI
  10.1038/s41467-025-56197-y
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-23H04281, KAKENHI-PROJECT-23K21151, KAKENHI-PROJECT-22K15083, KAKENHI-PROJECT-24K01991
[Journal Article] Theoretical insights into rotary mechanism of MotAB in the bacterial flagellar motor2024
- Author(s)
  Kubo Shintaroh、Okada Yasushi、Takada Shoji
- Journal Title
  
  Biophysical Journal
  
  Volume: 123 Issue: 20 Pages: 3587-3599
- DOI
  10.1016/j.bpj.2024.09.010
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-21H02441, KAKENHI-PROJECT-22H04926, KAKENHI-PROJECT-24K01991
[Journal Article] Nucleosomal DNA unwinding pathway through canonical and non-canonical histone disassembly.2024
- Author(s)
  Nozawa H, Nagae F, Ogihara S, Hirano R, Yamazaki H, Iizuka R, Akatsu M, Kujirai T, Takada S, Kurumizaka H, Uemura S.
- Journal Title
  
  Commun Biol.
  
  Volume: 7 Issue: 1 Pages: 1144-1144
- DOI
  10.1038/s42003-024-06856-5
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-24H02328, KAKENHI-PROJECT-23H05475, KAKENHI-PROJECT-22K05310, KAKENHI-PROJECT-22KJ1950, KAKENHI-PROJECT-24K01991
[Journal Article] Multiscale Bayesian simulations reveal functional chromatin condensation of gene loci2024
- Author(s)
  Brandani Giovanni B、Gu Chenyang、Gopi Soundhararajan、Takada Shoji
- Journal Title
  
  PNAS Nexus
  
  Volume: 3 Issue: 6 Pages: 226-226
- DOI
  10.1093/pnasnexus/pgae226
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24K01991
[Journal Article] Data Assimilation to Integrate High-Speed Atomic Force Microscopy with Biomolecular Simulations: Characterization of Drug Target Functions2024
- Author(s)
  Fuchigami Sotaro、Takada Shoji
- Journal Title
  
  Drug Development Supported by Informatics
  
  Volume: - Pages: 255-272
- DOI
  10.1007/978-981-97-4828-0_15
- ISBN
  9789819748273, 9789819748280
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-24K01991
[Journal Article] Extension of the iSoLF implicit-solvent coarse-grained model for multicomponent lipid bilayers2023
- Author(s)
  Ugarte La Torre Diego、Takada Shoji、Sugita Yuji
- Journal Title
  
  The Journal of Chemical Physics
  
  Volume: 159 Issue: 7 Pages: 75101-75101
- DOI
  10.1063/5.0160417
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-21H05249, KAKENHI-PROJECT-19H05645, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Postsynaptic protein assembly in three and two dimensions studied by mesoscopic simulations2023
- Author(s)
  Yamada Risa、Takada Shoji
- Journal Title
  
  Biophysical Journal
  
  Volume: 122 Issue: 16 Pages: 3395-3410
- DOI
  10.1016/j.bpj.2023.07.015
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Histone chaperone Nap1 dismantles an H2A/H2B dimer from a partially unwrapped nucleosome2023
- Author(s)
  Nagae Fritz、Takada Shoji、Terakawa Tsuyoshi
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 51 Issue: 11 Pages: 5351-5363
- DOI
  10.1093/nar/gkad396
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22KJ1950, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Micelle-like clusters in phase-separated Nanog condensates: A molecular simulation study2023
- Author(s)
  Mizutani Azuki、Tan Cheng、Sugita Yuji、Takada Shoji
- Journal Title
  
  PLOS Computational Biology
  
  Volume: 19 Issue: 7 Pages: e1011321-e1011321
- DOI
  10.1371/journal.pcbi.1011321
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-21H05282, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] FO-F1 coupling and symmetry mismatch in ATP synthase resolved in every FO rotation step2023
- Author(s)
  Kubo Shintaroh、Niina Toru、Takada Shoji
- Journal Title
  
  Biophysical Journal
  
  Volume: 122 Issue: 14 Pages: 2898-2909
- DOI
  10.1016/j.bpj.2022.09.034
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-22K15070, KAKENHI-PROJECT-22KJ0505, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Particle Smoother to Assimilate Asynchronous Movie Data of High-Speed AFM with MD Simulations2023
- Author(s)
  Kato Suguru、Takada Shoji、Fuchigami Sotaro
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 19 Issue: 14 Pages: 4678-4688
- DOI
  10.1021/acs.jctc.2c01268
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] The stoichiometric interaction model for?mesoscopic MD simulations of liquid-liquid phase separation2022
- Author(s)
  Murata Yutaka、Niina Toru、Takada Shoji
- Journal Title
  
  Biophysical Journal
  
  Volume: 121 Issue: 22 Pages: 4382-4393
- DOI
  10.1016/j.bpj.2022.10.001
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Molecular dynamics simulations for the study of chromatin biology.2022
- Author(s)
  G.B. Brandani, S. Gopi, M. Yamauchi, S. Takada
- Journal Title
  
  Current Opinion in Structural Biology
  
  Volume: 77 Pages: 102485-102485
- DOI
  10.1016/j.sbi.2022.102485
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-20K06587, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Coarse-grained molecular dynamics simulations of base-pair mismatch recognition protein MutS sliding along DNA2022
- Author(s)
  Inoue Keisuke、Takada Shoji、Terakawa Tsuyoshi
- Journal Title
  
  Biophysics and Physicobiology
  
  Volume: 19 Issue: 0 Pages: n/a
- DOI
  10.2142/biophysico.bppb-v19.0015
- ISSN
  2189-4779
- Language
  English
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-21H00252, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Cooperation among c-subunits of FoF1-ATP synthase in rotation-coupled proton translocation2022
- Author(s)
  Mitome Noriyo、Kubo Shintaroh、Ohta Sumie、Takashima Hikaru、Shigefuji Yuto、Niina Toru、Takada Shoji
- Journal Title
  
  eLife
  
  Volume: 11 Pages: 1-16
- DOI
  10.7554/elife.69096
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-17K07922, KAKENHI-PROJECT-19H02577, KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Rotational Mechanism of FO Motor in the F-Type ATP Synthase Driven by the Proton Motive Force2022
- Author(s)
  Kubo Shintaroh、Takada Shoji
- Journal Title
  
  Frontiers in Microbiology
  
  Volume: 13
- DOI
  10.3389/fmicb.2022.872565
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-20H05934, KAKENHI-PROJECT-21H02441
[Journal Article] Linker DNA length is a key to tri-nucleosome folding2021
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Journal Title
  
  Journal of Molecular Biology
  
  Volume: 433 Issue: 6 Pages: 166792-166792
- DOI
  10.1016/j.jmb.2020.166792
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-20H05934
[Journal Article] The kinetic landscape of nucleosome assembly: A coarse-grained molecular dynamics study2021
- Author(s)
  Giovanni B. Brandani, Cheng Tan, Shoji Takada
- Journal Title
  
  PLOS Computational Biology
  
  Volume: 17 Issue: 7 Pages: e1009253-e1009253
- DOI
  10.1371/journal.pcbi.1009253
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PLANNED-20H05934
[Journal Article] Opening of cohesin’s SMC ring is essential for timely DNA replication and DNA loop formation2021
- Author(s)
  Sakata Ryota、Niwa Kyoma、Ugarte La Torre Diego、Gu Chenyang、Tahara Eri、Takada Shoji、Nishiyama Tomoko
- Journal Title
  
  Cell Reports
  
  Volume: 35 Issue: 4 Pages: 1-13
- DOI
  10.1016/j.celrep.2021.108999
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-20H05385, KAKENHI-PROJECT-18H02372, KAKENHI-PLANNED-20H05934, KAKENHI-PLANNED-20H05937, KAKENHI-PROJECT-21H04767
[Journal Article] The lane-switch mechanism for nucleosome repositioning by DNA translocase2021
- Author(s)
  Nagae Fritz、Brandani Giovanni B、Takada Shoji、Terakawa Tsuyoshi
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 49 Issue: 16 Pages: 9066-9076
- DOI
  10.1093/nar/gkab664
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21H00252, KAKENHI-PROJECT-19H03194, KAKENHI-PLANNED-20H05934
[Journal Article] Testing mechanisms of DNA sliding by architectural DNA-binding proteins: dynamics of single wild-type and mutant protein molecules in vitro and in vivo2021
- Author(s)
 Kamagata Kiyoto, Itoh Yuji, Tan Cheng, Mano Eriko, Wu Yining, Mandali Sridhar, Takada Shoji, Johnson Reid C
- Journal Title
 
 Nucleic Acids Research
 
 Volume: 49 Issue: 15 Pages: 8642-8664
- DOI
 10.1093/nar/gkab658
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
 KAKENHI-PROJECT-20J00572, KAKENHI-PROJECT-20K06571, KAKENHI-PLANNED-20H05934, KAKENHI-PUBLICLY-21H00379
[Journal Article] Modeling DNA Opening in the Eukaryotic Transcription Initiation Complexes via Coarse-Grained Models2021
- Author(s)
  Genki Shino and Shoji Takada
- Journal Title
  
  Frontiers in Molecular Biosciences
  
  Volume: 8
- DOI
  10.3389/fmolb.2021.772486
- Peer Reviewed
- Data Source
  KAKENHI-PLANNED-20H05934
[Journal Article] Role of bacterial RNA polymerase gate opening dynamics in DNA loading and antibiotics inhibition elucidated by quasi-Markov State Model2021
- Author(s)
  Ilona Christy Unarta, Siqin Cao, Shintaroh Kubo, Wei Wang, Peter Pak-Hang Cheung, Xin Gao, Shoji Takada, Xuhui Huang
- Journal Title
  
  Proceeding of the National Academy of Sciences
  
  Volume: 118 Issue: 17
- DOI
  10.1073/pnas.2024324118
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-20H05934
[Journal Article] Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy2021
- Author(s)
  Koide Hiroki、Kodera Noriyuki、Bisht Shveta、Takada Shoji、Terakawa Tsuyoshi
- Journal Title
  
  PLOS Computational Biology
  
  Volume: 17 Issue: 7 Pages: e1009265-e1009265
- DOI
  10.1371/journal.pcbi.1009265
- Peer Reviewed / Open Access / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-21H00252, KAKENHI-PROJECT-20H00327, KAKENHI-PROJECT-19H03194, KAKENHI-PLANNED-20H05934
[Journal Article] Interactions of HP1 bound to H3K9me3 di-nucleosome by molecular simulations and biochemical assays2018
- Author(s)
  Watanabe S, Mishima Y, Shimizua M, Suetake I*, Takada S*
- Journal Title
  
  Biophysical J.
  
  Volume: 114 Issue: 10 Pages: 2336-2351
- DOI
  10.1016/j.bpj.2018.03.025
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-18K06095, KAKENHI-PROJECT-16KT0054, KAKENHI-PROJECT-15K14418
[Journal Article] DNA sliding in nucleosomes via twist defect propagation revealed by molecular simulations2018
- Author(s)
  Brandani Giovanni B、Niina Toru、Tan Cheng、Takada Shoji
- Journal Title
  
  Nucleic Acids Research
  
  Volume: 46 Issue: 6 Pages: 2788-2801
- DOI
  10.1093/nar/gky158
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054, KAKENHI-PUBLICLY-16H01303
[Journal Article] Chromatin remodelers couple inchworm motion with twist-defect formation to slide nucleosomal DNA2018
- Author(s)
  Giovanni B. Brandani and Shoji Takada
- Journal Title
  
  PLoS Computational Biology
  
  Volume: 14(11) Issue: 11 Pages: e1006512-e1006512
- DOI
  10.1371/journal.pcbi.1006512
- NAID
  120006540190
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054
[Journal Article] Interactions of HP1 bound to H3K9me3 di-nucleosome by molecular simulations and biochemical assays2018
- Author(s)
  Shuhei Watanabe, Yuichi Mishima, Masahiro Shimizu, Isao Suetake, Shoji Takada
- Journal Title
  
  Biophysical Journal
  
  Volume: 印刷中
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Journal Article] Reconstruction of Atomistic Structures from Coarse-Grained Models for Protein?DNA Complexes2018
- Author(s)
  Shimizu Masahiro、Takada Shoji
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 14 Issue: 3 Pages: 1682-1694
- DOI
  10.1021/acs.jctc.7b00954
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054, KAKENHI-PUBLICLY-16H01303
[Journal Article] Dynamic and Structural Modeling of the Specificity in Protein?DNA Interactions Guided by Binding Assay and Structure Data2018
- Author(s)
  Cheng Tan and Shoji Takada
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 14 (7) Issue: 7 Pages: 3877-3889
- DOI
  10.1021/acs.jctc.8b00299
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054
[Journal Article] Allosteric conformational change cascade in cytoplasmic dynein revealed by structure-based molecular simulations2017
- Author(s)
  Kubo Shintaroh、Li Wenfei、Takada Shoji
- Journal Title
  
  PLOS Computational Biology
  
  Volume: 13 Issue: 9 Pages: e1005748-e1005748
- DOI
  10.1371/journal.pcbi.1005748
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054, KAKENHI-PUBLICLY-16H01303
[Journal Article] Sequence-dependent nucleosome sliding in rotation-coupled and uncoupled modes revealed by molecular simulations2017
- Author(s)
  Niina Toru、Brandani Giovanni B.、Tan Cheng、Takada Shoji
- Journal Title
  
  PLOS Computational Biology
  
  Volume: 13 Issue: 12 Pages: e1005880-e1005880
- DOI
  10.1371/journal.pcbi.1005880
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-16KT0054, KAKENHI-PUBLICLY-16H01303
[Journal Article] Histone acetylation dependent energy landscapes in tri-nucleosome revealed by residue-resolved molecular simulations2016
- Author(s)
  Le Chang and Shoji Takada
- Journal Title
  
  Scientific Reports
  
  Volume: 6 Issue: 1
- DOI
  10.1038/srep34441
- NAID
  120005850270
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PUBLICLY-15H01351, KAKENHI-PUBLICLY-16H01303, KAKENHI-PROJECT-25251019, KAKENHI-PROJECT-16KT0054
[Journal Article] Near-atomic structural model for bacterial DNA replication initiation complex and its functional insights2016
- Author(s)
  Masahiro Shimizu, Yasunori Noguchi, Yukari Sakiyama, Hironori Kawakami, Tsutomu Katayama, and Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA
  
  Volume: 113 Issue: 50
- DOI
  10.1073/pnas.1609649113
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PUBLICLY-15H01351, KAKENHI-PUBLICLY-16H00775, KAKENHI-PUBLICLY-16H01303, KAKENHI-PROJECT-25251019, KAKENHI-PROJECT-16J02075, KAKENHI-PROJECT-26291004, KAKENHI-PROJECT-15K18504, KAKENHI-PROJECT-16KT0054
[Journal Article] Dynamic Coupling among Protein Binding, Sliding, and DNA Bending Revealed by Molecular Dynamics2016
- Author(s)
  Cheng Tan, Tsuyoshi Terakawa, and Shoji Takada
- Journal Title
  
  J. Am. Chem. Soc.
  
  Volume: 138 Issue: 27 Pages: 8512-8522
- DOI
  10.1021/jacs.6b03729
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PUBLICLY-15H01351, KAKENHI-PUBLICLY-16H01303, KAKENHI-PROJECT-25251019, KAKENHI-PROJECT-16KT0054
[Journal Article] On the ATP binding site of the ε subunit from bacterial F-type ATP synthases2016
- Author(s)
  Alexander Krah, and Shoji Takada
- Journal Title
  
  Biochimica et Biophysica Acta - Bioenergetics
  
  Volume: 1857 Issue: 4 Pages: 332-340
- DOI
  10.1016/j.bbabio.2016.01.007
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-15H01351, KAKENHI-PUBLICLY-16H01303, KAKENHI-PROJECT-25251019, KAKENHI-PROJECT-16KT0054
[Journal Article] Modeling Structural Dynamics of Biomolecular Complexes by Coarse-Grained Molecular Simulations2015
- Author(s)
  Shoji Takada, Ryo Kanada, Cheng Tan, Tsuyoshi Terakawa, Wenfei Li, and Hiroo Kenzaki
- Journal Title
  
  Accounts of Chemical Research
  
  Volume: 48 Issue: 12 Pages: 3026-3035
- DOI
  10.1021/acs.accounts.5b00338
- Peer Reviewed / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] Partial Unwrapping and Histone Tail Dynamics in Nucleosome Revealed by Coarse-Grained Molecular Simulations2015
- Author(s)
  Hiroo Kenzaki and Shoji Takada
- Journal Title
  
  PLoS Computational Biology
  
  Volume: 11 Issue: 8 Pages: e1004443-e1004443
- DOI
  10.1371/journal.pcbi.1004443
- NAID
  120005947019
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] On the Mg2+ binding site of the ε subunit from bacterial F-type ATP synthases2015
- Author(s)
  Alexander Krah and Shoji Takada
- Journal Title
  
  Biochimica et Biophysica Acta - Bioenergetics
  
  Volume: 1847 Issue: 10 Pages: 1101-1112
- DOI
  10.1016/j.bbabio.2015.05.018
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] Dimer domain swapping versus monomer folding in apo-myoglobin studied by molecular simulations2015
- Author(s)
  Koji Ono, Mashiho Ito, Shun Hirotab and Shoji Takada
- Journal Title
  
  Phys. Chem. Chem. Phys.
  
  Volume: 17 Issue: 7 Pages: 5006-5013
- DOI
  10.1039/c4cp05203j
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-14J04995, KAKENHI-PROJECT-25251019, KAKENHI-PUBLICLY-26104517
[Journal Article] Energy landscape views for interplays among folding, binding, and allostery of calmodulin domain2015
- Author(s)
  Wenfei Li, Wei Wang, and Shoji Takada,
- Journal Title
  
  Proceedings of the National Academy of Sciences USA
  
  Volume: 111(29) Issue: 29 Pages: 10550-10555
- DOI
  10.1073/pnas.1402768111
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-25251019, KAKENHI-PUBLICLY-26104517
[Journal Article] p53 dynamics upon response element recognition explored by molecular simulations2015
- Author(s)
  Tsuyoshi Terakawa and Shoji Takada
- Journal Title
  
  Scientific Reports
  
  Volume: 5 Issue: 1 Pages: 17107-17107
- DOI
  10.1038/srep17107
- NAID
  120005758220
- Peer Reviewed / Acknowledgement Compliant / Open Access
- Data Source
  KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] How Co-translational Folding of Multi-domain Protein Is Affected by Elongation Schedule: Molecular Simulations2015
- Author(s)
  Tomohiro Tanaka, Naoto Hori, and Shoji Takada
- Journal Title
  
  PLoS Computational Biology
  
  Volume: 11 Issue: 7 Pages: e1004356-e1004356
- DOI
  10.1371/journal.pcbi.1004356
- NAID
  120005946993
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] Couplings between Hierarchical Conformational Dynamics from Multi-Time Correlation Functions and Two-Dimensional Lifetime Spectra: Application to Adenylate Kinase2015
- Author(s)
  J. Ono, S. Takada, and S. Saito
- Journal Title
  
  Journal of Chemical Physics
  
  Volume: 142 Issue: 21 Pages: 212404-212404
- DOI
  10.1063/1.4914328
- Peer Reviewed / Acknowledgement Compliant
- Data Source
  KAKENHI-PROJECT-25288011, KAKENHI-PUBLICLY-25118509, KAKENHI-PUBLICLY-26104517, KAKENHI-PROJECT-25251019
[Journal Article] RESPAC : Method to Determine Partial Charges in Coarse-greined Prote in Model and Its Application to DNA-Binding Proteins' Journal of Chemical Theory and Computation2014
- Author(s)
  Tsuyoshi Terakawa and Shoji Takadae
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 10 Issue: 2 Pages: 711-721
- DOI
  10.1021/ct4007162
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-13J00499, KAKENHI-PUBLICLY-23107716, KAKENHI-PUBLICLY-25118509, KAKENHI-PROJECT-25251019, KAKENHI-PUBLICLY-26104517
[Journal Article] Folding coupled with assembly in split green fluorescent proteins studied by structure-based molecular simulations.2013
- Author(s)
  M. Ito, T. Ozawa and S. Takada
- Journal Title
  
  J. Phys. Chem.
  
  Volume: 117 Issue: 42 Pages: 13212-13218
- DOI
  10.1021/jp4032817
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-21675001, KAKENHI-PUBLICLY-25113704, KAKENHI-PROJECT-25251019
[Journal Article] Protein-Specific Force Field Derived from the Fragment Molecular Orbital Method can Improve Protein-Ligand Binding Interactions2013
- Author(s)
  L. Chang, T. Ishikawa, K. Kuwata, and S. Takada
- Journal Title
  
  J. Comp. Chem
  
  Volume: vol. 34 Issue: 14 Pages: 1251-1257
- DOI
  10.1002/jcc.23250
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PROJECT-23370068, KAKENHI-PROJECT-25251019
[Journal Article] ATP hydrolysis mechanism in kinesin studied by combined quantum-mechanical molecular-mechanical metadynamics2013
- Author(s)
  M. J. McGrath、I-F. W. Kuo, S.Hayashi, S. Takada
- Journal Title
  
  J. Amer. Chem. Soc.
  
  Volume: (in press) Issue: 24 Pages: 8908-891
- DOI
  10.1021/ja401540g
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716, KAKENHI-PROJECT-23657100, KAKENHI-PUBLICLY-25118509, KAKENHI-PROJECT-25251019, KAKENHI-PROJECT-25291034
[Journal Article] Structure-based Molecular Simulations Reveal the Enhancement of Biased Brownian Motions in Single-headed Kinesin2013
- Author(s)
  R. Kanada, T. Kuwata, H. Kenzaki, S.Takada
- Journal Title
  
  PLOS Comp.Biol.
  
  Volume: 9(2) Issue: 2 Pages: e1002907-e1002907
- DOI
  10.1371/journal.pcbi.1002907
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Bayesian parameter inference by Markov chain Monte Carlo with hybrid fitness measures: Theory and test in apoptosis signal transduction network2013
- Author(s)
  Yohei Murakami and Shoji Takada
- Journal Title
  
  PLoS One
  
  Volume: 8(9) Issue: 9 Pages: 1-17
- DOI
  10.1371/journal.pone.0074178
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-25118509
[Journal Article] Drug Uptake Pathways of Multidrug Transporter AcrB Studied by Molecular Simulations and Site-Directed Mutagenesis Experiments2013
- Author(s)
  Xin-Qiu Yao, Nobuhiro Kimura, Satoshi Murakami, and Shoji Takada
- Journal Title
  
  Journal of the American Chemical Society
  
  Volume: 135 (20) Issue: 20 Pages: 7474-7485
- DOI
  10.1021/ja310548h
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-23107716, KAKENHI-PUBLICLY-25118509, KAKENHI-PROJECT-25251019
[Journal Article] Coarse-grained molecular simulations of large biomolecules2012
- Author(s)
  S. Takada
- Journal Title
  
  Curr. Opinion Struct. Biol.
  
  Volume: Vol.22 Issue: 2 Pages: 130-137
- DOI
  10.1016/j.sbi.2012.01.010
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Rigor of cell fate decision by variable p53 pulses and roles of cooperative gene expression by p532012
- Author(s)
  Y. Murakami and S. Takada
- Journal Title
  
  BIOPHYSICS
  
  Volume: 8 Pages: 41-50
- DOI
  10.2142/biophysics.8.41
- NAID
  130002061596
- ISSN
  1349-2942
- Language
  English
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Energy landscape and multiroute folding of topologically complex proteins adenylate kinase and 2ouf-knot2012
- Author(s)
  W. Li, T. Terakawa, W. Wang, S.Takada
- Journal Title
  
  Proc. Nat. Acad. Sci. USA
  
  Volume: 44 Issue: 44 Pages: 17789-17794
- DOI
  10.1073/pnas.1201807109
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Coarse-Grained Structure-Based Model for RNA-Protein Complexes Developed by Fluctuation Matching2012
- Author(s)
  N. Hori and S. Takada
- Journal Title
  
  J. Chem. Theory and Comp.
  
  Volume: 8 Pages: 3384-3394
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] p53 searches on DNA by rotation-uncoupled sliding at C-terminal tails and restricted hopping of core domains2012
- Author(s)
  T. Terakawa, H. Kenzaki, S. Takada
- Journal Title
  
  J. Amer.Chem. Soc.
  
  Volume: 134 Issue: 35 Pages: 14555-14562
- DOI
  10.1021/ja305369u
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Coarse-grained structure-based model for RNA - protein complexes developed by fluctuation matching2012
- Author(s)
  Naoto Hori, Shoji Takada
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 8 Issue: 9 Pages: 3384-3394
- DOI
  10.1021/ct300361j
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-10J01723, KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Structural comparison of F1-ATPase: Interplay among enzyme structures, catalysis,and rotations2011
- Author(s)
  K. Okazaki S. Takada
- Journal Title
  
  Structure
  
  Volume: vol.19 Issue: 4 Pages: 588-598
- DOI
  10.1016/j.str.2011.01.013
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] CafeMol : A coarse-grained biomolecular simulator for simulating proteins at work2011
- Author(s)
  Hiroo Kenzaki, Nobuyasu Koga, Naoto Hori, Ryo Kanada, Wenfei Li, Kei-ichi Okazaki, Xin-Qiu Yao, Shoji Takada
- Journal Title
  
  Journal of Chemical Theory and Computation
  
  Volume: 7 Issue: 6 Pages: 1979-1989
- DOI
  10.1021/ct2001045
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-09J07737, KAKENHI-PROJECT-10J01723, KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Multiscale ensemble modeling of intrinsically disordered proteins: p53 N-terminal domain2011
- Author(s)
  T. Terakawa, S. Takada
- Journal Title
  
  Biophys. J
  
  Volume: vol.101 Issue: 6 Pages: 1450-1458
- DOI
  10.1016/j.bpj.2011.08.003
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PUBLICLY-23107716
[Journal Article] Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins2011
- Author(s)
  Wenfei Li, Peter G.Wolynes, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA
  
  Volume: vol.108, No.9 Pages: 3504-3509
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins2011
- Author(s)
  W. Li, P. G. Wolynes, S. Takada
- Journal Title
  
  Proc. Nat. Acad. Sci.USA
  
  Volume: vol.108, No.9 Issue: 9 Pages: 3504-3509
- DOI
  10.1073/pnas.1018983108
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins2011
- Author(s)
  Wenfei Li, Peter G.Wolynes, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA
  
  Volume: vol.108, No.9 Pages: 3504-3509
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] On easy implementation of a variant of the replica exchange with solute tempering in GROMACS2011
- Author(s)
  T. Terakawa, T. Kameda, S. Takada
- Journal Title
  
  J. Comp.Chem
  
  Volume: vol.32, No.7 Issue: 7 Pages: 1228-1234
- DOI
  10.1002/jcc.21703
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057, KAKENHI-PROJECT-23700359
[Journal Article] On easy implementation of a variant of the replica exchange with solute tempering in GROMACS2010
- Author(s)
  Tsuyoshi Terakawa, Tomoshi Kameda, Shoji Takada
- Journal Title
  
  Journal of Computational Chemistry
  
  Volume: vol.32, No.7 Pages: 1228-1234
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Characterizing protein energy landscape by the self-learning multiscale simulations : Application to a designed β-hairpin2010
- Author(s)
  Wenfei Li, Shoji Takada
- Journal Title
  
  Biophysical Journal
  
  Volume: vol.99, No.9 Pages: 3029-3037
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Drug export and allosteric coupling in a multidrug transporter revealed by molecular simulations2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Satoshi Murakami, Shoji Takada
- Journal Title
  
  Nature communications
  
  Volume: Vol.1.1
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Multiscale methods for protein folding simulations2010
- Author(s)
  Wenfei Li, Hiroaki Yoshii, Naoto Hori, Tomoshi Kameda, Shoji Takada
- Journal Title
  
  ELSEVIER
  
  Volume: vol.52, No.1 Pages: 106-114
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Drug export and allosteric coupling in a multidrug transporter revealed by molecular simulations2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Satoshi Murakami, Shoji Takada
- Journal Title
  
  Nature communications
  
  Volume: vol.1.1
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Multiscale methods for protein folding simulations2010
- Author(s)
  Wenfei Li, Hiroaki Yoshii, Naoto Hori, Tomoshi Kameda, Shoji Takada
- Journal Title
  
  ELSEVIER
  
  Volume: vol.52, No.1 Pages: 106-114
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Characterizing protein energy landscape by the self-learning multiscale simulations: Application to a designed β-hairpin2010
- Author(s)
  W. Li, S. Takada
- Journal Title
  
  Biophys. J.
  
  Volume: vol.99, No.9 Issue: 9 Pages: 3029-3037
- DOI
  10.1016/j.bpj.2010.08.041
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Characterizing protein energy landscape by the self-learning multiscale simulations : Application to a designed β-hairpin2010
- Author(s)
  Wenfei Li, Shoji Takada
- Journal Title
  
  Biophysical Journal
  
  Volume: vol.99, No.9 Pages: 3029-3037
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] On easy implementation of a variant of the replica exchange with solute tempering in GROMACS2010
- Author(s)
  Tsuyoshi Terakawa, Tomoshi Kameda, Shoji Takada
- Journal Title
  
  Journal of Computational Chemistry
  
  Volume: vol.32, No.7 Pages: 1228-1234
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Multiscale methods for protein folding simulations2010
- Author(s)
  W. Li, H. Yoshii, N. Hori, T. Kameda, S. Takada
- Journal Title
  
  Methods
  
  Volume: vol.52, No.1 Issue: 1 Pages: 106-114
- DOI
  10.1016/j.ymeth.2010.04.014
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Drug export and allosteric coupling in a multidrug transporter revealed by molecular simulations2010
- Author(s)
  X-Q. Yao, H. Kenzaki, S. Murakami, S.Takada
- Journal Title
  
  Nature communications
  
  Volume: vol.1.1 Issue: 1 Pages: 117-117
- DOI
  10.1038/ncomms1116
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-22370057
[Journal Article] Folding energy landscape and network dynamics of small globular proteins2009
- Author(s)
  Naoto Hori, George Chikenji, R. Stephen Berry, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 106
  
  Pages: 73-78
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Self-learning multiscale simulation for achieving high accuracy and high efficiency simultaneously2009
- Author(s)
  Wenfei Li, Shoji Takada
- Journal Title
  
  J.Chemical Physics Vol.130
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] アロステリーの分子機構 : MWCかあるいはKNFか?2009
- Author(s)
  岡崎圭一, 高田彰二
- Journal Title
  
  生物物理 Vol. 49
  
  Pages: 132-134
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Self-learning multiscale simulation for achieving high accuracy and high efficiency simultaneously2009
- Author(s)
  Wenfei Li, Shoji Takada
- Journal Title
  
  J.Chemical Physics Vol. 130
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Paddling mechanism for the substrate translocation by AAA+ motor revealed by multiscale molecular simulations2009
- Author(s)
  Nobuyasu Koga, Tomoshi Kameda, Kei-ichi Okazaki Shoji Takada
- Journal Title
  
  Proc.Nat.Acad.Sci.USA Vol.106
  
  Pages: 18237-18242
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Paddling mechanism for the substrate translocation by AAA+ motor revealed by multiscale molecular simulations2009
- Author(s)
  Nobuyasu Koga, Tomoshi Kameda, Kei-ichi Okazaki, Shoji Takada
- Journal Title
  
  Proc.Nat.Acad.Sci.USA Vol. 106
  
  Pages: 18237-18242
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Paddling mechanism for the substrate translocation by AAA+ motor revealed by multiscale molecular simulations2009
- Author(s)
  Nobuyasu Koga、Tomoshi Kameda、Kei-ichi Okazaki、Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA Vol.106
  
  Pages: 18237-18242
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] アロステリーの分子機構:MWCかあるいはKNFか?2009
- Author(s)
  岡崎圭一、高田彰二
- Journal Title
  
  生物物理 Vol.49
  
  Pages: 132-139
- Peer Reviewed
- Data Source
  KAKENHI-PUBLICLY-21107512
[Journal Article] Folding energy landscape and network dynamics of small globular proteins2009
- Author(s)
  Naoto Hori、George Chikenji、R. Stephen Berry、Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA Vol.106
  
  Pages: 73-78
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] In silico chaperonin-like cycle helps folding of proteins for structure prediction2008
- Author(s)
  Tadaomi Furuta, Yoshimi Fujitsuka, George Chikenji, and Shoji Takada
- Journal Title
  
  Biophysical Jouxnal 94
  
  Pages: 2558-2565
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] In silico chaperonin-like cycle helps folding of proteinsfor structure prediction2008
- Author(s)
  Tadaomi Furuta, Yoshimi Fujitsuka, George Chikenji, and Shoji Takada
- Journal Title
  
  Biophysical Journal 94
  
  Pages: 2558-2565
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Asymmetry in membrane protein sequence and structure: Glycine outside rule2008
- Author(s)
  Wenzhen Jin and Shoji Takada
- Journal Title
  
  Journal of Molecular Biology 377
  
  Pages: 74-82
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] In silico chaperonin-like cycle helps folding of proteins for structure prediction2008
- Author(s)
  Tadaomi Furuta, Yoshimi Fujitsuka, George Chikenji, Shoji Takada
- Journal Title
  
  Biophysical Journal 94
  
  Pages: 2558-2565
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms2008
- Author(s)
  Kei-ichi Okazaki、Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA Vol.105
  
  Pages: 11182-11187
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Asymmetry in membrane protein sequence and structure: Glycine outside rule2008
- Author(s)
  Wenzhen Jin and Shoji Takada
- Journal Title
  
  Journal of Molecular Biology 377
  
  Pages: 74-82
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Asymmetry in membrane protein sequence and structure: Glycine outside rule2008
- Author(s)
  Wenzhen Jin、Shoji Takada
- Journal Title
  
  Journal of Molecular Biology Vol.377
  
  Pages: 74-82
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Dynamic energy landscape view of coupled binding and protein conformational change : Induced-fit versus2008
- Author(s)
  Kei-ichi Okazaki, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 105
  
  Pages: 11182-11187
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19370069
[Journal Article] Shaping up the protein folding funnel by local interaction : Lesson from a structure prediction study2006
- Author(s)
  George Chikenji, Yoshimi Fujitsuka, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 103
  
  Pages: 3141-3146
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] SimFold energy function for de novo protein structure prediction : Consensus with Rosetta2006
- Author(s)
  Yoshimi Fujitsuka, George Chikenji, Shoji Takada
- Journal Title
  
  Proteins : Structure, Function, and Bioinformatics 62
  
  Pages: 381-398
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Folding-based molecular simulations reveal mechanisms of the rotary motor F1-ATPase2006
- Author(s)
  Nobuyasu Koga, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 103
  
  Pages: 5367-5372
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Multiple-basin energy landscapes for large amplitude conformational motions of proteins : Structure-based molecular dynamics simulations2006
- Author(s)
  Kei-icni Okazaki, Nobuyasu Koga, Shoji Takada, Jose N Onuchic, Peter G Wolynes
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 103
  
  Pages: 11844-11849
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Secondary structure templates the folding of nearby polypeptides2006
- Author(s)
  Tomoshi Kameda, Shoji Takada
- Journal Title
  
  Proceedings of the National Academy of Sciences USA 103
  
  Pages: 17765-17770
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Protein grabs a ligand by extending anchor residues : Molecular simulation for Ca2+ binding to calmodulin loop2006
- Author(s)
  Chigusa Kobayashi, Shoji Takada
- Journal Title
  
  Biophysical Journal 90
  
  Pages: 3043-3051
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] フォールディングの理論2005
- Author(s)
  高田彰二
- Journal Title
  
  実験医学 23
  
  Pages: 2254-2254
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] タンパク質のフォールディングシミュレーションから立体構造予測問題に迫る2005
- Author(s)
  岡本祐幸, 高田彰二
- Journal Title
  
  現代化学3月号
  
  Pages: 5-5
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Protein folding mechanisms and energy landscape of src SH3 domain studied b a structure prediction toolbox2004
- Author(s)
  George Chikenji, Yoshimi Fujitsuka, Shoii Takada
- Journal Title
  
  Chemical Physics 307
  
  Pages: 157-162
- Data Source
  KAKENHI-PROJECT-15076207
[Journal Article] Searching For the Maximum Rate in Protein Folding2004
- Author(s)
  Y Zhu, X Fu, T Wang, A Tamura, S Takada, JG.Saven, F Gai
- Journal Title
  
  Chemical Physics 307
  
  Pages: 99-109
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] GPU-accelerated coarse-grained MD simulator and its application to postsynaptic density2024
- Author(s)
  Yutaka Murata, Shoji Takada
- Organizer
  IUPAB2024
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Multiphase condensate formation of postsynaptic density: acomparative study of protein assembly in 3D and 2D systems2024
- Author(s)
  Risa Yamada, Shoji Takada
- Organizer
  IUPAB2024
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Multiscale biomolecular simulations for chromatin and transcription regulation2024
- Author(s)
  Shoji Takada
- Organizer
  IUPAB2024
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] ベイズモデリングによる分子シミュレーションと一分子データの融合：高速原子間力顕微鏡への適用2023
- Author(s)
  高田彰二
- Organizer
  新領域開拓課題「一分子の科学」令和4年度研究報告会
- Invited
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Energy landscape of nucleosomes2023
- Author(s)
  Shoji Takada
- Organizer
  American Chemical Society Spring 2023
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] DNA-segment Capture by SMC Complex -A Coarse-grained Simulation Study-2023
- Author(s)
  山内仁喬, 寺川剛, ブランダーニジョバンニブルーノ, 高田彰二
- Organizer
  第61回日本生物物理学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Energy landscape of nucleosomes2023
- Author(s)
  Shoji Takada
- Organizer
  American Chemical Society Spring 2023
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Multiscale computational modeling of chromatin and SMC proteins2023
- Author(s)
  Shoji Takada
- Organizer
  学術変革領域「DNAの物性から理解するゲノムモダリティ」領域会議
- Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Molecular Dynamics Simulations to Reveal Molecular Mechanism of DNA-Stimulated ATPase Activity of SMC Proteins2022
- Author(s)
  Masataka Yamauchi, Tsuyoshi Terakawa, Giovanni B. Brandani, Shoji Takada
- Organizer
  第60回日本生物物理学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] 転写開始複合体における TFIIH による DNA 開裂過程の分子シミュレーション研究2022
- Author(s)
  篠元輝、高田彰二
- Organizer
  第22回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Liquid-liquid phase separation of postsynaptic density protein PSD95 and TARP by mesoscopic simulation2022
- Author(s)
  Risa Yamada, Shoji Takada
- Organizer
  第22回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Mutlscale modeling of eukaryotic chromatin via Fugaku supercomputing2022
- Author(s)
  Shoji Takada
- Organizer
  蛋白研セミナー：Frontier of Dynamic Structural Biology
- Invited
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Coarse-grained and all-atom MD simulation studies on dimerization and phase separation for transcription factor Nanog2022
- Author(s)
  Azuki Mizutani, Cheng Tan, Yuji Sugita, Shoji Takada
- Organizer
  第22回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Mesoscopic simulation of glutamate receptor and PSD-95 in postsynaptic density2022
- Author(s)
  Risa Yamada, Shoji Takada
- Organizer
  第60回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] TFIIH-driven DNA Opening in Transcription Initiation Complex Studied by Molecular Simulations2022
- Author(s)
  Genki Shino, Shoji Takada
- Organizer
  第22回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Coarse-grained MD simulations of an elongation process of yeast RNA Pol2 moving toward a nucleosome2022
- Author(s)
  Takafumi Yamauchi, Genki Shino, Shoji Takada
- Organizer
  第60回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Coarse-grained biomolecular simulations for geometric modeling of HS-AFM data2022
- Author(s)
  Shoji Takada
- Organizer
  Computational and Theoretical Methods Applied to Atomic Force Microscopy - A Lecture-based Workshop
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] メゾスコピックシミュレーションによるシナプス後肥厚タンパク質 PSD95 と TARP の液液相分離2022
- Author(s)
  山田莉彩、高田彰二
- Organizer
  第22回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] Coarse-grained and all-atom molecular simulations for transcription factor Nanog2022
- Author(s)
  Azuki Mizutani, Cheng Tan, Yuji Sugita, Shoji Takada
- Organizer
  第60回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-21H02441
[Presentation] SMC蛋白質のDNAによって刺激されるATPase活性の分子機構解明2022
- Author(s)
  山内仁喬、寺川剛、Giovanni B. Brandani、高田彰二
- Organizer
  第3回　生体分子シミュレーションス・モデリング研究会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Nucleosome and transcription factor dynamics2021
- Author(s)
  Shoji Takada
- Organizer
  "The 1-st Fugaku Bio-supercomputing Workshop on Cellular-scale Molecular Dynamics Simulations"
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Coarse-grained Molecular Simulation to Reveal Conformational Change and DNA binding of Bacterial SMC-kleisin Complex2021
- Author(s)
  Masataka Yamauchi, Shoji Takada
- Organizer
  第59回日本生物物理学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Computational approach to structural dynamics and functions of SMC proteins2021
- Author(s)
  Shoji Takada
- Organizer
  第44回日本分子生物学会年会
- Invited
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Diverse nucleosome dynamics revealed by molecular dynamics simulations2021
- Author(s)
  Shoji Takada
- Organizer
  International Webinar Multiscale Simulation & Mathematical Modelling of Complex Biological Systems
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Biophysics on Genome DNA - Toward Understanding of Genome Modality Computational approach to structures and dynamic functions of SMC proteins that organize genome folding2021
- Author(s)
  Shoji Takada
- Organizer
  第59回日本生物物理学会年会
- Invited
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] 天然変性領域に適した粗子化力場モデルのベイズ推定による改良とその検証2021
- Author(s)
  水谷淳生、Giovanni B. Brandani、高田彰二
- Organizer
  第21回日本蛋白質科学学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Coarse-grained molecular simulations on oligomerization and condensate formation of transcription factor Nanog2021
- Author(s)
  Azuki Mizutani, Shoji Takada
- Organizer
  第59回日本生物物理学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Molecular mechanism of MutS sliding on DNA explored by coarse-grained molecular dynamics simulations2021
- Author(s)
  Keisuke Inoue, Shoji Takada, Tsuyoshi Terakawa
- Organizer
  第59回日本生物物理学会年会
- Data Source
  KAKENHI-PLANNED-20H05934
[Presentation] Implicit Solvent Coarse-Grained Lipid Model for Molecular Simulations of Multicomponent Membrane Systems2018
- Author(s)
  Diego Ugarte, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Investigating Genome Organization and Regulation with Coarse-Grained Molecular Simulations2018
- Author(s)
  Cheng Tan, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Mesoscopic Molecular Simulation for Self-assembly of the Postsynaptic Density Proteins2018
- Author(s)
  Slevin Ohama Hana, Ugarte Diego, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Opening in Transcription Initiation Complex Studied by Coarse-grained Molecular Simulation2018
- Author(s)
  Genki Shino, Masahiro Shimizu, Shintaro Kubo, Toru Niina, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Coarse-Grained Force Field for Molecular Simulations of Lipid-Protein System2018
- Author(s)
  Diego Ugarte, Shoji Takada
- Organizer
  第18回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] How Toll-like receptor 4 dimerization is activated in lipid raft studied by molecular simulations2018
- Author(s)
  Manami Ikeda, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] フリッパーゼ作動機構解明に向けた糖鎖付加脂質の動態解析と粗視化モデリング2018
- Author(s)
  村田隆、新稲亮、高田彰二
- Organizer
  第18回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] 転写開始前複合体PIC形成とDNA開裂の粗視化分子シミュレーション研究2018
- Author(s)
  篠元輝, 清水将裕, 久保進太郎, 新稲亮, 高田彰二
- Organizer
  第18回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Distinct binding of nuclear proteins to non B-type DNA studied by molecular simulation2018
- Author(s)
  Mami Saito, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Mechanism of Biomolecular Dynamics and Function Revealed by Multiscale Physics2018
- Author(s)
  Cheng Tan, Shoji Takada
- Organizer
  第56回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Protein folding and misfolding studied by molecular simulations2018
- Author(s)
  Shoji Takada
- Organizer
  第17回日本蛋白質科学会年会
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] 複雑生体分子系のマルチスケールシミュレーション2017
- Author(s)
  高田彰二
- Organizer
  第14回京都大学福井謙一記念研究センターシンポジウム
- Place of Presentation
  京都大学福井謙一記念研究センター（京都市）
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Sequence Dependent Spontaneous Nucleosome Slidings Revealed by Molecular Dynamics Simulation2017
- Author(s)
  Toru Niina, Giovanni Brandani, Cheng Tan, Shoji Takada
- Organizer
  第55回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Dynamics of nucleosomes and transcription factors studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  第55回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Protein folding and misfolding studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  International IPR Seminar “New Frontiers in Protein Misfolding and Aggregation”
- Place of Presentation
  Institute for Protein Research（Osaka）
- Year and Date
  2017-01-26
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Protein folding and misfolding studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  International IPR Seminar “New Frontiers in Protein Misfolding and Aggregation”
- Place of Presentation
  Institute for Protein Research（Osaka）
- Year and Date
  2017-01-26
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Position Weight Matrix Informed Modeling of Sequence-Specific Protein-DNA Interactions2017
- Author(s)
  Cheng Tan, Shoji Takada
- Organizer
  The 5th International Symposium of the Mathematics on Chromatin Dynamics Organizing Committee
- Place of Presentation
  東広島芸術文化ホールくらら（東広島市）
- Year and Date
  2017-03-07
- Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] NEAR-ATOMIC STRUCTURAL MODEL FOR BACTERIAL DNA REPLICATION INITIAT ION COMPLEX AND ITS FUNCTIONAL INSIGHTS2017
- Author(s)
  Masahiro Shimizu, Yasunori Noguchi, Yukari Sakiyama, Hironori Kawaka mi, Tsutomu Katayama, Shoji Takada
- Organizer
  Biophysical Society 61st Annual Meeting
- Place of Presentation
  New Orleans（USA）
- Year and Date
  2017-02-11
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Protein folding and misfolding studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  International IPR Seminar “New Frontiers in Protein Misfolding and Aggregation”
- Place of Presentation
  Institute for Protein Research（Osaka）
- Year and Date
  2017-01-26
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] In vitro versus in vivo protein folding studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  Nobel Symposium on Protein Folding: From Mechanisms to Impact on Cells
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Coarse-grained molecular simulations for giant protein-DNA complexes2017
- Author(s)
  Shoji Takada
- Organizer
  American Physical Society Metting, New Orleans March 2017
- Place of Presentation
  New Orleans（USA）
- Year and Date
  2017-03-13
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] A New Coarse-Grained Lipid Model for the Study of Lipid-Membrane Protein Systems2017
- Author(s)
  Diego Ugarte, Shoji Takada
- Organizer
  第55回日本生物物理学会年会
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Protein folding and misfolding studied by molecular simulations2017
- Author(s)
  Shoji Takada
- Organizer
  International IPR Seminar “New Frontiers in Protein Misfolding and Aggregation”
- Place of Presentation
  Institute for Protein Research（Osaka）
- Year and Date
  2017-01-26
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] Coarse-grained molecular simulations for giant protein-DNA complexes2017
- Author(s)
  Shoji Takada
- Organizer
  American Physical Society Metting, New Orleans March 2017
- Place of Presentation
  New Orleans（USA）
- Year and Date
  2017-03-13
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Coarse-grained molecular simulations for giant protein-DNA complexes2017
- Author(s)
  Shoji Takada
- Organizer
  American Physical Society Metting, New Orleans March 2017
- Place of Presentation
  New Orleans（USA）
- Year and Date
  2017-03-13
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Coarse-grained molecular simulations for giant protein-DNA complexes2017
- Author(s)
  Shoji Takada
- Organizer
  American Physical Society Metting, New Orleans March 2017
- Place of Presentation
  New Orleans（USA）
- Year and Date
  2017-03-13
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] 細胞質ダイニンの歩行運動メカニズムに関する分子シミュレーション研究2016
- Author(s)
  久保進太郎, 高田彰二
- Organizer
  第10回分子科学討論会
- Place of Presentation
  神戸ファッションマート（神戸市）
- Year and Date
  2016-09-13
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale Modeling of Flexible Biomolecular Complex2016
- Author(s)
  Shoji Takada
- Organizer
  4th International Conference on Molecular Simulation (ICMS 2016)
- Place of Presentation
  Shanghai（China）
- Year and Date
  2016-10-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] 細胞質ダイニンの構造変化を伴う運動メカニズムに関する分子シミュレーション研究2016
- Author(s)
  久保進太郎, 高田彰二
- 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（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Co-translational folding reaction mechanisms studied by molecular simulations2016
- Author(s)
  Shoji Takada
- Organizer
  第16回日本蛋白質科学会年会
- Place of Presentation
  福岡国際会議場（福岡市）
- Year and Date
  2016-06-07
- Invited
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] 細菌DNA複製開始複合体の近原子構造モデルと機能解析2016
- Author(s)
  清水将裕、野口泰徳、﨑山友香里、川上広宣、片山勉、高田彰二
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（横浜市）
- Year and Date
  2016-11-30
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 細菌DNA複製開始複合体の近原子構造モデルと機能解析2016
- Author(s)
  清水将裕、野口泰徳、﨑山友香里、川上広宣、片山勉、高田彰二
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（横浜市）
- Year and Date
  2016-11-30
- Invited
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] Molecular Mechanisms of Nucleosome Sliding Revealed by Coarse-Grained Molecular Dynamics Simulation2016
- Author(s)
  Toru Niina, Shoji Takada
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Multiscale Modeling of Molecular Motors and Dynamic Protein-Nucleic Acid Complexes2016
- Author(s)
  Shoji Takada
- Organizer
  Molecular Machines of Life: Simulation Meets Experiment
- Place of Presentation
  Hong Kong（China）
- Year and Date
  2016-05-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Developing a coarse-grained model of lipid for l arge molecular simulations2016
- Author(s)
  Suguru Kato, Shoji Takada
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Multiscale computational modeling for giant biomolecular complexes2016
- Author(s)
  Shoji Takada
- Organizer
  複雑・複合系の理論計算科学に関する日・仏・スペイン合同シンポジウム
- Place of Presentation
  京都大学福井謙一記念研究センター（京都市）
- Year and Date
  2016-10-26
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Multiscale Modeling of Molecular Motors and Dynamic Protein-Nucleic Acid Complexes2016
- Author(s)
  Shoji Takada
- Organizer
  Molecular Machines of Life: Simulation Meets Experiment
- Place of Presentation
  Hong Kong（China）
- Year and Date
  2016-05-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale Modeling of Flexible Biomolecular Complex2016
- Author(s)
  Shoji Takada
- Organizer
  4th International Conference on Molecular Simulation (ICMS 2016)
- Place of Presentation
  Shanghai, China
- Year and Date
  2016-10-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 細菌DNA複製開始複合体の近原子構造モデルと機能解析2016
- Author(s)
  清水将裕、野口泰徳、﨑山友香里、川上広宣、片山勉、高田彰二
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（横浜市）
- Year and Date
  2016-11-30
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] 細胞質ダイニンの歩行運動メカニズムに関する粗子化MD計算2016
- Author(s)
  久保進太郎, 高田彰二
- Organizer
  第16回日本蛋白質科学会年会
- Place of Presentation
  福岡国際会議場（福岡市）
- Year and Date
  2016-06-07
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale Modeling of Flexible Biomolecular Complex2016
- Author(s)
  Shoji Takada
- Organizer
  4th International Conference on Molecular Simulation (ICMS 2016)
- Place of Presentation
  Shanghai（China）
- Year and Date
  2016-10-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] Co-translational folding reaction mechanisms studied by molecular simulations2016
- Author(s)
  Shoji Takada
- Organizer
  第16回日本蛋白質科学会年会
- Place of Presentation
  福岡国際会議場（福岡市）
- Year and Date
  2016-06-07
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Sequence-Specific Protein-DNA Interactions for Molecular Simulations Modeled by Position Weight Matrix2016
- Author(s)
  Cheng Tan, Shoji Takada
- Organizer
  第54回日本生物物理学会年会
- Place of Presentation
  つくば国際会議（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] 細菌DNA複製開始複合体の近原子構造モデルと機能解析2016
- Author(s)
  清水将裕、野口泰徳、﨑山友香里、川上広宣、片山勉、高田彰二
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（横浜市）
- Year and Date
  2016-11-30
- Invited
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] 蛋白質・ＤＮＡの粗視化分子モデル2016
- Author(s)
  高田彰二
- Organizer
  第10回分子シミュレーションスクール－基礎から応用まで－
- Place of Presentation
  岡崎コンファレンスセンター（岡崎市）
- Year and Date
  2016-10-18
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] リンカーDNA により繋がっているダイヌクレオソーム構造のサンプリング2016
- Author(s)
  検崎博生, 高田彰二
- 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（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 分子シミュレーションによるDNA・クロマチン・ゲノム動構造研究2016
- Author(s)
  高田彰二
- Organizer
  第７回数理デザイン道場
- Place of Presentation
  日本科学未来館（東京都）
- Year and Date
  2016-12-19
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] 微小管上での細胞質ダイニンの運動メカニズムに関する分子シミュレーション研究2016
- Author(s)
  久保進太郎, 高田彰二
- Organizer
  第39回日本分子生物学会年会
- Place of Presentation
  パシフィコ横浜（横浜市）
- Year and Date
  2016-11-30
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 「ヒストンタンパク質のリサイクル機構」-分子シミュレーションによるアプローチ-2016
- Author(s)
  清水将裕, 高田彰二
- Organizer
  第4回動的クロマチン班会議
- Place of Presentation
  ルスツリゾート（北海道）
- Year and Date
  2016-07-07
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Structural modeling of the subnucleosome using coarse-grained molecular dynamics simulations2016
- Author(s)
  Masahiro Shimizu, Shoji Takada
- 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（つくば市）
- Year and Date
  2016-11-25
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale Modeling of Molecular Motors and Dynamic Protein-Nucleic Acid Complexes2016
- Author(s)
  Shoji Takada
- Organizer
  Molecular Machines of Life: Simulation Meets Experiment
- Place of Presentation
  Hong Kong（China）
- Year and Date
  2016-05-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-15H01351
[Presentation] Co-translational folding reaction mechanisms studied by molecular simulations2016
- Author(s)
  Shoji Takada
- Organizer
  第16回日本蛋白質科学会年会
- Place of Presentation
  福岡国際会議場（福岡市）
- Year and Date
  2016-06-07
- Invited
- Data Source
  KAKENHI-PUBLICLY-16H01303
[Presentation] タンパク質DNA複合体のマルチスケールモデリング：粗視化モデルから原子モデル構造の構築2016
- Author(s)
  清水将裕, 高田彰二
- Organizer
  第10回分子科学討論会
- Place of Presentation
  神戸ファッションマート（神戸市）
- Year and Date
  2016-09-13
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale Modeling of Flexible Biomolecular Complex2016
- Author(s)
  Shoji Takada
- Organizer
  4th International Conference on Molecular Simulation (ICMS 2016)
- Place of Presentation
  Shanghai（China）
- Year and Date
  2016-10-23
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-16KT0054
[Presentation] HU Binding Coupled Bending of Double Stranded DNA2015
- Author(s)
  Cheng Tan，Tsuyoshi Terakawa, Shoji Takada
- 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-PUBLICLY-25118509
[Presentation] Mechanical properties of the minute mice of virus capsid: Coarse-grained Molecular simulation.2015
- Author(s)
  Koji Ono, Tsuyoshi Terakawa, Shoji Takada
- 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-PROJECT-25251019
[Presentation] Flexibility in protein-DNA molecular recognition studied by multiscale simulations2015
- Author(s)
  Shoji Takada
- Organizer
  「柔らかな分子系」国際シンポジウム（第3回公開シンポジウム）
- Place of Presentation
  日本科学未来館（東京）
- Year and Date
  2015-07-09
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] Coarse-grained modeling of flexible biomolecular complexes2015
- Author(s)
  Shoji Takada
- Organizer
  2015 Shanghai Symposium on Frontiers in Computational Chemistry
- Place of Presentation
  Shanghai, China
- Year and Date
  2015-08-24
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Computational modeling of chromatin & transcription factor by coarse-grained molecular simulations2015
- Author(s)
  Shoji Takada
- Organizer
  Kyoto-Heidelberg Joint Workshop 2015, “Applied Mathematics, Scientific Computing, and Applications”
- Place of Presentation
  Kyoto,Japan
- Year and Date
  2015-08-31
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] 粗視化モデルによるダイヌクレオソーム間の相互作用とヒストンテイルの役割2015
- Author(s)
  検崎博生、高田彰二
- 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-PROJECT-25251019
[Presentation] Heterochromatin protein 1 binding to nucleosomes studied by coarse-grained simulations2015
- Author(s)
  Shuhei Watanabe, Yuichi Mishima, Isao Suetake and Shoji Takada
- 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-PUBLICLY-26104517
[Presentation] Flexibility in protein-DNA interactions studied by molecular simulations2015
- Author(s)
  Shoji Takada
- 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-PUBLICLY-26104517
[Presentation] Disordered tail of the linker histone H1 in chromatin compaction dynamics studied by coarse-grained simulations2015
- Author(s)
  Nobu C. Shirai and Shoji Takada
- Organizer
  「柔らかな分子系」国際シンポジウム（第3回公開シンポジウム）
- Place of Presentation
  日本科学未来館（東京都）
- Year and Date
  2015-07-09
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Computational modeling of chromatin & transcription factor by coarse-grained molecular simulations2015
- Author(s)
  Shoji Takada
- Organizer
  Kyoto-Heidelberg Joint Workshop 2015, “Applied Mathematics, Scientific Computing, and Applications”
- Place of Presentation
  Kyoto, Japan
- Year and Date
  2015-08-31
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Protein-DNA Complexes in crowded chromatin-like environment2015
- Author(s)
  Shoji Takada
- Organizer
  IPR Seminar on Molecular Crowding and Macromolecular Association
- Place of Presentation
  Institute for Protein Research, Osaka University
- Year and Date
  2015-02-05
- Invited
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] Structural insights into chromatin folding and transcriptional regulation2015
- Author(s)
  Shoji Takada
- Organizer
  The International Chemical Congress of Pacific basin Societies 2015
- Place of Presentation
  Honolulu, Hawaii
- Year and Date
  2015-12-15
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Interaction of replication initiator protein DnaA with dsDNA studied by molecular dynamics simulation2015
- Author(s)
  Masahiro Shimizu and Shoji Takada
- Organizer
  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-PUBLICLY-25118509
[Presentation] Structural insights into chromatin folding and transcriptional regulation2015
- Author(s)
  Shoji Takada
- Organizer
  The International Chemical Congress of Pacific basin Societies 2015
- Place of Presentation
  Honolulu, Hawaii
- Year and Date
  2015-12-15
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Interaction of replication initiator protein DnaA with dsDNA studied by molecular dynamics simulation2015
- Author(s)
  Masahiro Shimizu and Shoji Takada
- 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-PROJECT-25251019
[Presentation] 多時間相関関数および2次元寿命スペクトルによる階層的構造変化ダイナミクスの解析：アデニル酸キナーゼへの応用2015
- Author(s)
  小野純一，高田彰二，斉藤真司
- Organizer
  第18回理論化学討論会
- Place of Presentation
  大阪大学（大阪府豊中市）
- Year and Date
  2015-05-20
- Data Source
  KAKENHI-PROJECT-25288011
[Presentation] 粗視化シミュレーションから見えてきたクロマチン凝縮ダイナミクスにおけるH1 C末端変性部位の重要性2015
- Author(s)
  白井伸宙、高田彰二
- 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-PROJECT-25251019
[Presentation] 多時間相関関数および2次元寿命スペクトルによる階層的構造変化ダイナミクスの解析：アデニル酸キナーゼへの応用2015
- Author(s)
  小野純一，高田彰二，斉藤真司
- Organizer
  第9回分子科学討論会
- Place of Presentation
  東京工業大学（東京都目黒区）
- Year and Date
  2015-09-16
- Data Source
  KAKENHI-PROJECT-25288011
[Presentation] HU Binding, Sliding, and Bending of Double Stranded DNA: A Coarse-Grained Molecular Dynamics Simulation Study2015
- Author(s)
  Cheng Tan and Shoji Takada
- Organizer
  「柔らかな分子系」国際シンポジウム（第3回公開シンポジウム）
- Place of Presentation
  日本科学未来館（東京都）
- Year and Date
  2015-07-09
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Protein-DNA Complexes in crowded chromatin-like environment2015
- Author(s)
  Shoji Takada
- Organizer
  IPR Seminar on Molecular Crowding and Macromolecular Association
- Place of Presentation
  大阪大学蛋白質研究所（吹田市）
- Year and Date
  2015-02-05
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 複製開始タンパク質DnaAと二重鎖DNA相互作用の分子動力学計算による解析2015
- Author(s)
  清水将裕、高田彰二
- Organizer
  転写サイクル合同班会議　2015
- Place of Presentation
  ホテル暖香園（伊東市）
- Year and Date
  2015-08-03
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] IDP in protein-DNA interactions studied by coarse-grained simulations2015
- Author(s)
  Shoji Takada
- Organizer
  The CECAM workshop on “Intrinsically Disordered Proteins – Bringing together Physics, Computation, and Biology”
- Place of Presentation
  Zurich, Switzerland
- Year and Date
  2015-08-18
- Invited / Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] Specific DNA sequence search dynamics of p53 and effect of acetylation of its C-terminal domain: multi-scale simulation study2014
- Author(s)
  Tsuyoshi Terakawa, Junichi Higo, Shoji Takada
- Organizer
  Biophysical Society 58th Annual Meeting
- Place of Presentation
  Moscone Center, San Francisco
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Functional Dynamics of Disordered Regions in Multi-Domain Proteins2014
- Author(s)
  Shoji Takada
- Organizer
  Gordon Research Conference "Protein Folding Dynamics"
- Place of Presentation
  Texas, USA
- Invited
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Functional Dynamics of Disordered Regions in Multi-Domain Proteins2014
- Author(s)
  Shoji Takada
- Organizer
  Gordon Research Conference "Protein Folding Dynamics"
- Place of Presentation
  Texas, USA
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] On free energy landscape and "transition path" in folding of Go model2014
- Author(s)
  Shoji Takada
- Organizer
  International Workshop “Over the Barriers of Transition Paths: Dynamical Processes in Proteins and Complex Molecular Systems”
- Place of Presentation
  Tokyo Institute of Technology
- Year and Date
  2014-06-28
- Invited
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] Structure of model chromatin and dynamics of transcription factors studied by coarse-grained simulations2013
- Author(s)
  Shoji Takada
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立国際会議場（京都市）
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Flexibility and specificity in protein-DNA complexes2013
- Author(s)
  Shoji Takada
- Organizer
  International Symposium on Physical Principles and Underlying Mechanisms of Biomolecules and Materials
- Place of Presentation
  Beijing, China
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] ドメインスワッピング形成機構の分子シミュレーションによる理論研究2013
- Author(s)
  小野晃司, 高田彰二
- 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-25251019
[Presentation] Specific DNA sequence search and recognition mechanism of transcription factor p53: Multi-scale simulation study2013
- Author(s)
  Tsuyoshi Terakawa, Junichi Higo, Shoji Takada
- Organizer
  第7回分子科学討論会
- Place of Presentation
  京都テルサ（京都市）
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Specific DNA sequence search and recognition mechanism of tumor suppressor p53: Multi-scale simulation study2013
- Author(s)
  Tsuyoshi Terakawa, Junichi Higo, Shoji Takada
- Organizer
  転写サイクル合同班会議　2013
- Place of Presentation
  ホテルおかだ（神奈川県）
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] The Mg2+ binding site of the ATP synt hase & epsilon ; sub unit from Bacillus subtilis derived by Molecular Dynamics simul ations2013
- Author(s)
 Alexander Krah, Shoji Takada
- Organizer
 第51回日本生物物理学会年会
- Place of Presentation
 国立国際会議場(京都市)
- Data Source
 KAKENHI-PROJECT-13F03705
[Presentation] Coarse-grained modeling of biomolecular systems2013
- Author(s)
  Shoji Takada
- Organizer
  Japan-Korea Symposium for Molecular Science
- Place of Presentation
  ホテル北野プラザ六甲荘（神戸市）
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Large-Scale Functional Dynamics of p53 Studied by Multi-Scale Molecular Simulations2013
- Author(s)
  Shoji Takada
- Organizer
  IMS Workshop on "Hierarchical Molecular Dynamics:From Ultrafast Spectroscopy to Single Molecule Measurements"
- Place of Presentation
  岡崎コンファレンスセンター（岡崎市）
- Invited
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Structure of model chromatin and dynamics of transcription factors studied by coarse-grained simulations2013
- Author(s)
  Shoji Takada
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立国際会議（京都市）
- Invited
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Flexibility and specificity in protein-DNA complexes2013
- Author(s)
  Shoji Takada
- Organizer
  International Symposium on Physical Principles and Underlying Mechanisms of Biomolecules and Materials
- Place of Presentation
  Beijing, China
- Invited
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] システム生物学におけるベイズパラメータ推定2013
- Author(s)
  村上陽平, 高田彰二
- Organizer
  第23回日本数理生物学会大会
- Place of Presentation
  静岡大学浜松キャンパス（浜松市）
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] The Mg2+ binding site of the ATP synt hase & epsilon ; sub unit from Bacillus subtilis<h> derived by Molecular Dynamics simul ations2013
- Author(s)
 Alexander Krah, Shoji Takada
- Organizer
 Workshop on Modelling Biomolecular Systems in Cellular Environments
- Place of Presentation
 京都大学(京都市)
- Data Source
 KAKENHI-PROJECT-13F03705
[Presentation] Molecular simulation study on signaling control in yeast MAPK pathway2013
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立国際会議場（京都市）
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] DNA unwinding mechanisms in E. coli, oriC region studied by coarse grained molecular dynamics simulations2013
- Author(s)
 Shimizu Masahiro, Shoji Takada
- Organizer
 第51回日本生物物理学会年会
- Place of Presentation
 国立国際会議（京都市）
- Data Source
 KAKENHI-PUBLICLY-25118509
[Presentation] DNA unwinding mechanisms in E. coli, oriC region studied by coarse grained molecular dynamics simulations2013
- Author(s)
 Shimizu Masahiro, Shoji Takada
- Organizer
 第51回日本生物物理学会年会
- Place of Presentation
 国立国際会議場（京都市）
- Data Source
 KAKENHI-PROJECT-25251019
[Presentation] 分子動力学シミュレーションによる緑色蛍光タンパク質断片のフォールディング機構の研究2013
- Author(s)
  伊藤真志保, 高田彰二
- 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-25251019
[Presentation] Specific DNA sequence search and recognition mechanism of transcription factor p53: multi-scale simulation study2013
- Author(s)
  Tsuyoshi Terakawa, Higo Junichi, Shoji Takada
- Organizer
  第51回日本生物物理学会年会
- Place of Presentation
  国立国際会議（京都市）
- Data Source
  KAKENHI-PUBLICLY-25118509
[Presentation] Transcription Factor p53 Searching Dynamics on DNA Studied by Coarse-Grained Simulation2012
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  揺らぎと生体機能第5回公開シンポジウム
- Place of Presentation
  東大寺総合文化センター(奈良市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Protential derived charge for better description of protein sliding dynamics on DNA2012
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  揺らぎと生体機能　第6回公開シンポジウム
- Place of Presentation
  京都テルサ（京都市）
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 生体分子粗視化シミュレータCafeMolの開発と応用2012
- Author(s)
  検崎博生, 高田彰二
- Organizer
  次世代ナノ統合シミュレーションソフトウェアの研究開発(ナノ統合)次世代生命体統合シミュレーションソフトウェアの研究開発(ライフ)公開シンポジウム
- Place of Presentation
  神戸ポートアイランドセンターニチイ学館(神戸市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Stability and dynamics of RNA virus(T=1) studied by coarse-grained simulations2012
- Author(s)
  Koji Ono, Naoto Hori, Shoji Takada
- Organizer
  揺らぎと生体機能　第6回公開シンポジウム
- Place of Presentation
  京都テルサ（京都市）
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] A Coarse-Grained Simulation Study of Ribosome and tRNA Dynamics during Translocation2012
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  Biophysical Society 56th Annual Meeting
- Place of Presentation
  The San Diego Convention Center (USA)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-grained molecular simulations of large biomolecules : From theory to applications2012
- Author(s)
  Shoji Takada
- Organizer
  The 9th Fukui Inst Fundamental Chemistry Seminar
- Place of Presentation
  Fukui Institute for Fundamental Chemistry (Kyoto)(招待講演)
- Year and Date
  2012-03-06
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Fluctuations of Transfer RNAs in the Ribosome Cavity Studied by Coarse-Grained Simulations2012
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  揺らぎと生体機能第5回公開シンポジウム
- Place of Presentation
  東大寺総合文化センター(奈良市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 蛋白質のフォールディング、ミスフォールディングと会合:シミュレーションによるアプローチ2012
- Author(s)
  高田彰二
- Organizer
  神戸大学先端融合科学シンポジウム「タンパク質アセンブリ-会合、超分子化、凝集-」
- Place of Presentation
  神戸大学(神戸市)(招待講演)
- Year and Date
  2012-01-31
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 粗視化分子動力学計算によるリボソームにおける翻訳伸長機構の研究2012
- Author(s)
  堀直人、高田彰二
- Organizer
  第1回RIBOSOME MEETING
- Place of Presentation
  広島大学生物生産学部(東広島市)
- Year and Date
  2012-03-15
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 転写因子p53はDNA上をどのように走査するか?分子シミュレーションによる研究2012
- Author(s)
  寺川剛, 高田彰二
- Organizer
  第5回京阪奈セミナー
- Place of Presentation
  関西光科学研究所(木津市)
- Year and Date
  2012-03-30
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Drug uptake in a multidrug transporter studied by coarse-grained simulations2012
- Author(s)
  Xin-Qiu Yao, Shoji Takada
- Organizer
  次世代ナノ統合シミュレーションソフトウェアの研究開発(ナノ統合)次世代生命体統合シミュレーションソフトウェアの研究開発(ライフ)公開シンポジウム
- Place of Presentation
  神戸ポートアイランドセンターニチイ学館(神戸市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-Grained simulations of proteins, nucleic acids, and their complexes2012
- Author(s)
  Shoji Takada
- Organizer
  Coarse-Grained Modeling of Structure and Dynamics of Biomacromolecules
- Place of Presentation
  Telluride, USA
- Invited
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 全原子計算によるキネシン-微小管間の界面構造のリファイメント2012
- Author(s)
  金田亮, 牧野司, 富重道雄, 高田彰二
- Organizer
  次世代ナノ統合シミュレーションソフトウェアの研究開発(ナノ統合)次世代生命体統合シミュレーションソフトウェアの研究開発(ライフ)公開シンポジウム
- Place of Presentation
  神戸ポートアイランドセンターニチイ学館(神戸市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-grained molecular simulations of large biomolecules:From theory to applications2012
- Author(s)
  S. Takada
- Organizer
  The 9th Fukui Inst Fundamental Chemistry Seminar(招待講演)
- Place of Presentation
  Fukui Inst. Fundamental Chem.(Kyoto)
- Year and Date
  2012-03-06
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION: EXPLORING THE BINDING PATHWAYS OF DRUGS2011
- Author(s)
  X-Q. Yao, H. Kenzaki, S. Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore(USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Activation mechanism of rhodopsin elucidated by molecular dynamics simulations2011
- Author(s)
  Fuyuki Sakai, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION : EXPLORING THE BINDING PATHWAYS OF DRUGS2011
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Kinesin internal tension for the coordinated walk estimated by all-atom MD simulation(全原子MDによる双頭キネシン分子モーターの内部張力評価)2011
- Author(s)
  金田亮、牧野司、富重道雄、高田彰
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] ミトコンドリア依存アポトーシスシグナル伝達系の数理モデル化とその応答2011
- Author(s)
  村上陽平、高田彰二
- Organizer
  第33回日本分子生物学会年会
- Place of Presentation
  神戸ポートアイランド(神戸市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Kinesin internal tension for the coordinated walk estimated by all-atom MD simulation(全原子MDによる双頭キネシン分子モーターの内部張力評価)2011
- Author(s)
  金田亮、牧野司、富重道雄、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Molecular dynamics simulation of pH-activated KcsA channel2011
- Author(s)
  Atsushi Horimoto, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] KINESIN INTERNAL TENSION FOR THE COORDINATED WALK ESTIMATED BY ALL-ATOM MD SIMULATION2011
- Author(s)
  Ryo Kanada, Tsukasa Makino, Michio Tomishige, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 分子シミュレーションによる多剤排出トランスポーターの作動機構研究2011
- Author(s)
  高田彰二
- Organizer
  第33回日本分子生物学会年会
- Place of Presentation
  神戸ポートアイランド(神戸市)(招待講演)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 翻訳中のリボソーム複合体とtRNAのダイナミクス-粗視化分子シミュレーション-2011
- Author(s)
  掘直人, 高田彰二
- Organizer
  第11回日本蛋白質科学会年会
- Place of Presentation
  ホテル阪急エキスポパーク(吹田市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] KINESIN INTERNAL TENSION FOR THE COORDINATED WALK ESTIMATED BY ALL-ATOM MD SIMULATION2011
- Author(s)
  R. Kanada, T. Makino, M. Tomishige, S. Takada
- Organizer
  Biophys. Soc. 55th Ann. Meeting
- Place of Presentation
  20110305-09
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 粗視化分子モデルによる生体分子機械の作動原理研究2011
- Author(s)
  高田彰二
- Organizer
  日本物理学会2011年秋期大会
- Place of Presentation
  富山大学五福キャンパス(富山市)(招待講演)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 粗視化分子モデルによる生体分子機械の作動原理研究2011
- Author(s)
  高田彰二
- Organizer
  日本物理学会2011年秋期大会
- Place of Presentation
  富山大学五福キャンパス（富山市）
- Invited
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] シミュレーションで観る生体分子機械のゆらぎと機能2011
- Author(s)
  高田彰二
- Organizer
  自然科学研究機構プロジェクト「機能生命科学における揺らぎと決定」(招待講演)
- Place of Presentation
  生理学研究所(岡崎市)
- Year and Date
  2011-02-23
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] KINESIN INTERNAL TENSION FOR THE COORDINATED WALK ESTIMATED BY ALL-ATOM MD SIMULATION2011
- Author(s)
  Ryo Kanada, Tsukasa Makino, Michio Tomishige, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Multiscale computational approach to kinesin and F1-ATPase2011
- Author(s)
  S. Takada
- Organizer
  Telluride Science Research center meeting(招待講演)
- Place of Presentation
  Telluride (USA)
- Year and Date
  2011-08-09
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Ribosome and tRNA Dynamics during Elongation Studied by Coarse-Grained Molecular Simulations2011
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  The 16th Annual Meeting of the RNA Society
- Place of Presentation
  Kyoto international Conference Center (Kyoto)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] タンパク質-DNA複合体の粗視化シミュレーション:ヌクレオソームの力学的なアンジッピング、ポスター発表2011
- Author(s)
  検崎博生、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] CafeMolを用いた粗視化シミュレーションによるヌクレオソームの動的構造解析2011
- Author(s)
  高山真澄、検崎博生、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] ヌクレオソームのアンジッピングシミュレーション2011
- Author(s)
  検崎博生, 高田彰二
- Organizer
  バイオスーパーコンピューティングサマースクール2011
- Place of Presentation
  兵庫県立淡路夢舞台国際会議場(淡路)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] COARSE-GRAINED SIMULATION OF PROTEIN-DNA COMPLEX: MECHANICAL UNZIPPING OF NUCLEOSOME2011
- Author(s)
  H. Kenzaki, S. Takada
- Organizer
  Biophys. Soc. 55th Ann. Meeting
- Place of Presentation
  Baltimore(USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION : EXPLORING THE BINDING PATHWAYS OF DRUGS2011
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 特有の立体構造を取るRNAのダイナミクスに迫る-粗視化モデルによる試み-2011
- Author(s)
  掘直人, 高田彰二
- Organizer
  次世代バイオインフォマティクス研究会
- Place of Presentation
  産業技術総合研究所北海道センター(札幌市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 粗視化生体分子シミュレータCafeMol2011
- Author(s)
  高田彰二
- Organizer
  蛋白質研究所セミナー
- Place of Presentation
  大阪大学蛋白質研究所(吹田市)(招待講演)
- Year and Date
  2011-03-05
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Coarse-grained molecular simulation study of ribosomal translocation dynamics2011
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Ligand motions coupled with protein conformational changes : Rhodopsin and a drug transporter2011
- Author(s)
  Shoji Takada
- Organizer
  IMS Symposium on "Recent Developments of Spectroscopy and Spatial and Temporal Hierarchical Structures in Molecular Science"
- Place of Presentation
  National Institute for Physiological Sciences (Okazaki)(招待講演)
- Year and Date
  2011-10-18
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] ミトコンドリア依存アポトーシスシグナル伝達系の数理モデル化とその応答2011
- Author(s)
  村上陽平、高田彰二
- Organizer
  第33回日本分子生物学会年会
- Place of Presentation
  神戸ポートアイランド(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] On application of multi-scale ensemble modeling method to tumor suppressor p53 quaternary structure2011
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] CafeMolを用いた粗視化シミュレーションによるヌクレオソームの動的構造解析2011
- Author(s)
  高山真澄、検崎博生、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Multiscale Biomolecular Simulations of Kinesin Motors2011
- Author(s)
  Ryo Kanada, Takeshi Kuwata, Hiroo Kenzaki, Tukasa Makino, Michio Tomishige, Shoji Takada
- Organizer
  The 2nd international symposium on "Multi-scale Simulations of Biological and Soft Materials" (MSBSM 2011)
- Place of Presentation
  Shiran Kaikan (Kyoto)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] シミュレーションで観る生体分子機械のゆらぎと機能2011
- Author(s)
  高田彰二
- Organizer
  自然科学研究機構プロジェクト「機能生命科学における揺らぎと決定」
- Place of Presentation
  生理学研究所(岡崎市)(招待講演)
- Year and Date
  2011-02-23
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 粗視化生体分子シミュレータCafeMol2011
- Author(s)
  高田彰二
- Organizer
  蛋白質研究所セミナー(招待講演)
- Place of Presentation
  大阪大学蛋白質研究所(吹田市)
- Year and Date
  2011-03-05
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] ロドプシン活性過程におけるレチナールの反転2011
- Author(s)
  坂井冬樹, 高田彰二
- Organizer
  第11回日本蛋白質科学会年会
- Place of Presentation
  ホテル阪急エキスポパーク(吹田市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Multiscale computational approach to kinesin and F1-ATPase2011
- Author(s)
  Shoji Takada
- Organizer
  Telluride Science Research center meeting
- Place of Presentation
  Telluride (USA)(招待講演)
- Year and Date
  2011-08-09
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] COARSE-GRAINED SIMULATION OF PROTEIN-DNA COMPLEX : MECHANICAL UNZIPPING OF NUCLEOSOME2011
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Drug translocation and allosteric coupling in a multidrug transporter studied by molecular simulations2011
- Author(s)
  Xin-Qiu Yao, Shoji Takada
- Organizer
  17th International Biophysics Congress
- Place of Presentation
  China National Convention Center (China)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] COARSE-GRAINED SIMULATION OF PROTEIN-DNA COMPLEX : MECHANICAL UNZIPPING OF NUCLEOSOME2011
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 55th Annual Meeting
- Place of Presentation
  Baltimore (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 粗視化分子モデルによる生体分子機械の作動原理研究2011
- Author(s)
  高田彰二
- Organizer
  日本物理学会2011年秋期大会(招待講演)
- Place of Presentation
  富山大学五福キパス(富山市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] シミュレーションで観る生体分子機械のゆらぎと機能2011
- Author(s)
  高田彰二
- Organizer
  自然科学研究機構プロジェクト「機能生命科学における揺らぎと決定」
- Place of Presentation
  生理学研究所(岡崎市)(招待講演)
- Year and Date
  2011-02-23
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] タンパク質-DNA複合体の粗視化シミュレーション:ヌクレオソームの力学的なアンジッピング、ポスター発表2011
- Author(s)
  検崎博生、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 全原子シミュレーションによるキネシン-微小管間の界面構造のリファインメント2011
- Author(s)
  金田亮, 高田彰二
- Organizer
  バイオスーパーコンピューティングサマースクール2011
- Place of Presentation
  兵庫県立淡路夢舞台国際会議場(淡路)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-grained simulations of multi-nucleosome systems2011
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Mathematical modeling of apoptosis-survival signal transduction pathway and its response of cell poulation2011
- Author(s)
  村上陽平, 高田彰二
- Organizer
  第34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
  2011-12-14
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] On application of multi-scale ensemble modeling method to tumor suppressor p53 quaternary structure2011
- Author(s)
  寺川剛, 高田彰二
- Organizer
  第11回日本蛋白質科学会年会
- Place of Presentation
  ホテル阪急エキスポパーク(吹田市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-Grained Modeling of Biomolecular Systems2011
- Author(s)
  Shoji Takada
- Organizer
  Theorectical Chemistry Institute Seminar
- Place of Presentation
  University of Wisconsin-Madison (USA)(招待講演)
- Year and Date
  2011-08-15
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 分子シミュレーションによる多剤排出トランスポーターの作動機構研究2011
- Author(s)
  高田彰二
- Organizer
  第33回日本分子生物学会年会
- Place of Presentation
  神戸ポートアイランド(神戸市)(招待講演)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 生体分子シミュレーションによる蛋白質ゆらぎ、構造変化、機能研究2011
- Author(s)
  高田彰二
- Organizer
  第17回創薬情報研究会
- Place of Presentation
  新大阪丸ビル新館(大阪市)(招待講演)
- Year and Date
  2011-09-13
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] The uptake and export of drugs in a multidrug transporter studied by coarse-grained simulations2011
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-grained simulation of protein-DNA complex : mechanical unzipping of nucleosome2011
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  The 2nd international symposium on "Multi-scale Simulations of Biological and Soft Materials" (MSBSM 2011)
- Place of Presentation
  Shiran Kaikan (Kyoto)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Coarse-grained model of RNA-protein complexes derived by multiscale simulation method2011
- Author(s)
  Naoto Hori, Shoji Takada
- Organizer
  The 2nd international symposium on "Multi-scale Simulations of Biological and Soft Materials" (MSBSM 2011)
- Place of Presentation
  Shiran Kaikan (Kyoto)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 粗視化生体分子シミュレータCafeMol2011
- Author(s)
  高田彰二
- Organizer
  蛋白質研究所セミナー
- Place of Presentation
  大阪大学蛋白質研究所(吹田市)(招待講演)
- Year and Date
  2011-03-05
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] The interface structure between kinesin and microtubule refined by all-atom MD simulations2011
- Author(s)
  Ryo Kanada, Tsukasa Makino, Michio Tomishige, Shoji Takada
- Organizer
  第49回日本生物物理学会年会
- Place of Presentation
  兵庫県立大学書写キャンパス(姫路市)
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] Kinesin internal tension for the coordinated walk estimated by all-atom MD simulation(全原子MDによる双頭キネシン分子モーターの内部張力評価)、2011
- Author(s)
  金田亮、牧野司、富重道雄、高田彰二
- Organizer
  第3回バイオスーパーコンピューティングシンポジウム
- Place of Presentation
  理化学研究所計算科学研究機構(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Large scale protein motions studied by multiscale simulations2011
- Author(s)
  Shoji Takada
- Organizer
  International workshop on multiscale characterization of biological systems : From molecules to networks
- Place of Presentation
  Nanjin University (China)(招待講演)
- Year and Date
  2011-06-02
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] 分子シミュレーションによる多剤排出トランスポーターの作動機構研究2011
- Author(s)
  高田彰二
- Organizer
  第33回日本分子生物学会年会
- Place of Presentation
  神戸ポートアイランド(神戸市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Nucleosome unwrapping dynamic studied by coarse-grained molecular simulations2010
- Author(s)
  M. Takayama, H. Kenzaki, S. Takada
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Coarse-grained simulation of protein-DNA complex: mechanical unzipping of nucleosome2010
- Author(s)
  H. Kenzaki, S. Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Molecular Dynamics Simulation Study of p53 Intrinsically Disordered N Terminal Domain2010
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] CG modeling of biomolecular machines : Specificity, non-linearity, and function2010
- Author(s)
  Shoji Takada
- Organizer
  Characterizing Landscapes : From Biomolecules to Cellular Networks
- Place of Presentation
  Telluride (USA)(招待講演)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Molecular Dynamics Simulation Study of p53 Intrinsically Disordered N Terminal Domain2010
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] RNA-タンパク質複合体の粗視化シミュレーションモデル:全原子モデルに基づく導出2010
- Author(s)
  堀直人, Wenfei Li, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] CG modeling of biomolecular machines: Specificity, non-linearity, and function2010
- Author(s)
  S. Takada
- Organizer
  Characterizing Landscapes: From Biomolecules to Cellular Networks(招待講演)
- Place of Presentation
  Telluride(USA)
- Year and Date
  2010-07-05
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Kinesin internal tension for the coordinated walk estimated by all-atom MD simulation2010
- Author(s)
  Ryo Kanada, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco(USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Functionally rotating mechanism of a multidrug transporter studied2010
- Author(s)
  X-Q. Yao, H. Kenzaki, S. Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Coarse-grained simulation of protein-DNA complex : mechanical unzipping of nucleosome2010
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  揺らぎと生体機能第4回公開シンポジウム
- Place of Presentation
  滋賀県立県民交流センターピアザ淡海(大津市)
- Year and Date
  2010-11-30
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] MECHANISM OF UNIDIRECTIONAL MOVE OF KIF1A MOTOR STUDIED BY COARSE-GRAINED SIMULATIONS2010
- Author(s)
  Ryo Kanada, Takeshi Kuwata, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco (USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CG modeling of biomolecular machines : Specificity, non-linearity, and function2010
- Author(s)
  Shoji Takada
- Organizer
  Characterizing Landscapes : From Biomolecules to Cellular Networks
- Place of Presentation
  Telluride (USA)(招待講演)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Nucleosome unwrapping dynamic studied by coarse-grained molecular simulations2010
- Author(s)
  Masumi Takayama, Hiroo Kenzaki, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] BIOMOLECULAR COARSE-GRAINED SIMULATION PROGRAM CAFEMOL2010
- Author(s)
  Hiroo Kenzaki、Nobuyasu Koga、Shinji Fujiwara、Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco(USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] p53のN末端天然変性ドメインの分子動力学シミュレーション研究2010
- Author(s)
  寺川剛, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Coarse-grained model of RNA-protein complexes based on all-atom simulations2010
- Author(s)
  Naoto Hori, Wenfei Li, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Coarse-grained model of RNA-protein complexes based on all-atom simulations2010
- Author(s)
  N. Hori, W. Li, S. Takada
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Modulations of protein allosteric dynamics by physicochemical features2010
- Author(s)
  W. Li, S. Takada
- Organizer
  Characterizing Landscapes: From Biomolecules to Cellular Networks
- Place of Presentation
  Telluride(USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Modulations of protein allosteric dynamics by physicochemical features2010
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  Characterizing Landscapes : From Biomolecules to Cellular Networks
- Place of Presentation
  Telluride (USA)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] ENSEMBLE MODELING OF P53 INTRINSICALLY DISORDERED N-TERMINAL DOMAIN BY COMBINING MULTI-SCALE SIMULATIONS WITH NMR EXPERIMENTS2010
- Author(s)
  Tsuyoshi Terakawa, Shoji Takada
- Organizer
  揺らぎと生体機能第4回公開シンポジウム
- Place of Presentation
  滋賀県立県民交流センターピアザ淡海(大津市)
- Year and Date
  2010-11-30
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 分子動力学シミュレーションによるロドプシン活性(MetaII)状態の構造モデルとその活性過程の解析2010
- Author(s)
  坂井冬樹, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Nucleosome unwrapping dynamic studied by coarse-grained molecular simulations2010
- Author(s)
  Masumi Takayama, Hiroo Kenzaki, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] RNA-タンパク質複合体の粗視化シミュレーションモデル:全原子モデルに基づく導出2010
- Author(s)
  堀直人, Wenfei Li, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] ENSEMBLE MODELING OF P53 INTRINSICALLY DISORDERED N-TERMINAL DOMAIN BY COMBINING MULTI-SCALE SIMULATIONS WITH NMR EXPERIMENTS2010
- Author(s)
  T. Terakawa, S. Takada
- Organizer
  揺らぎと生体機能第4回公開シンポジウム
- Place of Presentation
  滋賀県立県民交流センターピアザ淡海(大津市)
- Year and Date
  2010-11-30
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Molecular Dynamics Simulation Study of p53 Intrinsically Disordered N Terminal Domain2010
- Author(s)
  T. Terakawa, S. Takada
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2010
- Author(s)
  X-Q. Yao, H. Kenzaki, S. Takada
- Organizer
  揺らぎと生体機能第4回公開シンポジウム
- Place of Presentation
  滋賀県立県民交流センターピアザ淡海(大津市)
- Year and Date
  2010-11-30
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] FUNCTIONALLY ROTATING MECHANISM OF A MULTIDRUG TRANSPORTER STUDIED BY COARSE-GRAINED SIMULATION2010
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco (USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Modulations of protein allosteric dynamics by physicochemical features2010
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  Characterizing Landscapes : From Biomolecules to Cellular Networks
- Place of Presentation
  Telluride (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Coarse-grained simulation of protein-DNA complex : mechanical unzipping of nucleosome2010
- Author(s)
  Hiroo Kenzaki, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Modeling Rhodopsin active conformation (Meta II) by molecular dynamics simulations2010
- Author(s)
  F. Sakai, S. Takada
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Kinesin internal tension for the coordinated walk estimated by all-atom MD simulation2010
- Author(s)
  R. Kanada, S. Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Modeling Rhodopsin active conformation (Meta II) by molecular dynamics simulations2010
- Author(s)
  Fuyuki Sakai, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Modeling Rhodopsin active conformation (Meta II) by molecular dynamics simulations2010
- Author(s)
  Fuyuki Sakai, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Coarse-grained model of RNA-protein complexes based on all-atom simulations2010
- Author(s)
  Naoto Hori, Wenfei Li, Shoji Takada
- Organizer
  第48回日本生物物理学会年会
- Place of Presentation
  東北大学川内キャンパス(仙台市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 分子動力学シミュレーションによるロドプシン活性(MetaII)状態の構造モデルとその活性過程の解析2010
- Author(s)
  坂井冬樹, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] MECHANISM OF UNIDIRECTIONAL MOVE OF KIF1A MOTOR STUDIED BY COARSE-GRAINED SIMULATIONS2010
- Author(s)
  Ryo Kanada, Takeshi Kuwata, Hiroo Kenzaki Shoji Takada
- Organizer
  Biophysical Society 54th Annual Meeting
- Place of Presentation
  San Francisco (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] p53のN末端天然変性ドメインの分子動力学シミュレーション研究2010
- Author(s)
  寺川剛, 高田彰二
- 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(札幌市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 蛋白質の大振幅ゆらぎと機能の分子シミュレーション研究2009
- Author(s)
  高田彰二
- 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(徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Molecular Simulation Study of Kinesin : Coupling between ATPase Domain Conformational Change and Mechanical2009
- Author(s)
  Ryo Kanada, Kei-ichi Okazaki, Shoji Takada
- Organizer
  The Biophysical Society's 53rd Annual Meeting
- Place of Presentation
  Boston
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- 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 (東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CafeMol:生体分子粗視化シミュレーションプログラム2009
- Author(s)
  検崎博生、古賀信康、藤原慎司、堀直人、金田亮、岡崎圭一、姚新秋、高田彰二
- 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(東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Folding simulations of chignolin by self-learning multiscale method2009
- Author(s)
  Wenfei Li, Shoji Takada
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working Principle of Biomolecular Motors Revealed by Molecular Dynamics Simulations2009
- Author(s)
  Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス(京都市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] KIF1A分子モーターの一方向性の運動発現機構のシミュレーション研究2009
- Author(s)
  金田亮, 桑田豪, 岡崎圭一, 検崎博生, 高田彰二
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Protein folding network, and energy landscape, studied by parallel Wang-Landau sampling2009
- Author(s)
  Shoji Takada
- Organizer
  Supercomputing in Solid State Physics 2009
- Place of Presentation
  物性研究所
- Year and Date
  2009-02-16
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Biomolecular Coarse-Grained Simulation Program2009
- Author(s)
  Hiroo Kenzaki, Nobuyasu Koga, Shinji Fujiwara, Naoto Hori, Ryo Kanada, Kei-ichi Okazaki, Xin-Qiu Yao, Shoji Takada、CafeMol
- Organizer
  RIKEN Joint Computational Science Workshop 2009
- Place of Presentation
  理化学研究所(横浜市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principles of biomolecular motors studied by multiscale simulations2009
- Author(s)
  高田彰二
- Organizer
  International Symposium on Multi-Scale Dynamics of Protein Complex Formation and Function
- Place of Presentation
  東京大学 (東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao、Hiroo Kenzaki, Shoji Takada
- 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(徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 蛋白質の大振幅ゆらぎと機能の分子シミュレーション研究2009
- Author(s)
  高田彰二
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Folding simulations of chignolin by self-learning multiscale method2009
- Author(s)
  Wenfei Li, Shoji Takada
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス(京都市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Working Principle of Biomolecular Motors Revealed by Molecular Dynamics Simulations2009
- Author(s)
  Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス(京都市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Membrane morphology dynamics induced by proteins : Coarse-grained moiecular simulationsタンパク質によって誘起される膜形態ダイナミクス:粗視化分子シミュレーション2009
- Author(s)
  藤原慎司、高田彰二
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CafeMol : 生体分子粗視化シミュレーションプログラム2009
- Author(s)
  検崎博生, 古賀信康, 藤原慎司, 堀直人, 金田亮, 岡崎圭一, 姚新秋, 高田彰二
- 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 (東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Self-learning multiscale simulations for biomolecular systems2009
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  International Symposium on Multi-Scale Dynamics of Protein Complex Formation and Function
- Place of Presentation
  東京大学 (東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Membrane morphology dynamics induced by proteins: Coarse-grained molecular simulationsタンパク質によって誘起される膜形態ダイナミクス:粗視化分子シミュレーション2009
- Author(s)
  藤原慎司、高田彰二
- 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(徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Self-Learning Multi-scale Simulations2009
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス (京都市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] レプリカ交換法による巨大タンパク質-核酸複合系の粗視化シミュレーション研究2009
- Author(s)
  Naoto Hori, Hiroo Kenzaki, Shoji Takada
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CafeMol : Biomolecular Coarse-Grained Simulation Program2009
- Author(s)
  Hiroo Kenzaki, Nobuyasu Koga, Shinji Fujiwara, Naoto Hori, Ryo Kanada, Kei-ichi Okazaki, Xin-Qiu Yao, Shoji Takada
- Organizer
  RIKEN Joint Computational Science Workshop 2009
- Place of Presentation
  理化学研究所 (横浜市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 蛋白質の大振幅ゆらぎと機能の分子シミュレーション研究2009
- Author(s)
  高田彰二
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CafeMol : Biomolecular Coarse-Grained Simulation Program2009
- Author(s)
  Hiroo Kenzaki, Nobuyasu Koga, Shinji Fujiwara, Naoto Hori, Ryo Kanada, Kei-ichi Okazaki, Xin-Qiu Yao, Shoji Takada
- Organizer
  RIKEN Joint Computational Science Workshop 2009
- Place of Presentation
  理化学研究所(横浜市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Working Principle of Biomolecular Motors Revealed by Molecular Dynamics Simulations2009
- Author(s)
  高田彰二
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス (京都市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principle of biomolecular motors revealed by molecular dynamics simulations2009
- Author(s)
  Shoji Takada
- Organizer
  The 238th American Chemical Society National Meeting
- Place of Presentation
  Washington D.C. (USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] レプリカ交換法による巨大タンパク質-核酸複合系の粗視化シミュレーション研究2009
- Author(s)
  Naoto Hori, Hiroo Kenzaki, Shoji Takada
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Membrane morphology dynamics induced by proteins : Coarse-grained molecular simulations タンパク質によって誘起される膜形態ダイナミクス : 粗視化分子シミュレーション2009
- Author(s)
  藤原慎司, 高田彰二
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 計算機実験による生体分子モーターの作動原理探求2009
- Author(s)
  高田彰二
- Organizer
  自然科学研究機構スーパーコンピューターワークショップ2009
- 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-19370069
[Presentation] KIF1A分子モーターの一方向性の運動発現機構の解明2009
- Author(s)
  金田亮, 桑田豪 ,検崎博生, 高田彰二
- 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(東京都)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス (京都市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principle of biomolecular motors revealed by molecular dynamics simulations2009
- Author(s)
  Shoji Takada
- Organizer
  The 238th American Chemical Society National Meeting
- Place of Presentation
  Washington D.C. (USA)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Coarse-grained simulation of protein-DNA complex : dynamics of nucleosome2009
- Author(s)
  検崎博生, 高田彰二
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] CafeMol:生体分子粗視化シミュレーションプログラム2009
- Author(s)
  検崎博生、古賀信康、藤原慎司、堀直人、金田亮、岡崎圭一、姚新秋、高田彰二
- 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(東京都)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Self-learning multi-scale simulation2009
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  The Biophysical Society's 53rd Annual Meeting
- Place of Presentation
  Boston
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principle of biomolecular motors revealed by molecular dynamics simulations2009
- Author(s)
  高田彰二
- Organizer
  The 238th American Chemical Society National Meeting
- Place of Presentation
  Washington D. C. (USA)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Functionally rotating mechanism of amultidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao, Hiroo Kenzaki, Shoji Takada
- 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(東京都)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao、Hiroo Kenzaki, Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス(京都市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principles of biomolecular motors studied by multiscale simulations2009
- Author(s)
  Shoji Takada
- Organizer
  International Symposium on Multi-Scale Dynamics of Protein Complex Formation and Function
- Place of Presentation
  東京大学(東京都)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] KIF1A分子モーターの一方向性の運動発現機構のシミュレーション研究2009
- Author(s)
  金田亮, 桑田豪, 岡崎圭一, 検崎博生, 高田彰二
- 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 (徳島市)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Self-learning multiscale simulations for biomolecular systems2009
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  International Symposium on Multi-Scale Dynamics of Protein Complex Formation and Function
- Place of Presentation
  東京大学(東京都)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] KIF1A分子モーターの一方向性の運動発現機構の解明2009
- Author(s)
  金田亮, 桑田豪, 検崎博生, 高田彰二
- 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 (東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Self-Learning Multi-scale Simulations2009
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  International Symposium on "Reaction Dynamics of Many-Body Chemical Systems"
- Place of Presentation
  京都ガーデンプレス(京都市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] Coarse-grained simulation of protein-DNA complex : dynamics of nucleosome2009
- Author(s)
  Hiroo Kenzaki,Shoji Takada
- 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(徳島市)
- Data Source
  KAKENHI-PUBLICLY-21107512
[Presentation] 計算機実験による生体分子モーターの作動原理探求2009
- Author(s)
  高田彰二
- Organizer
  自然科学研究機構スーパーコンピューターワークショップ2009
- Place of Presentation
  自然科学研究機構岡崎コンフアレンスセン
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Functionally rotating mechanism of a multidrug transporter studied by coarse-grained simulation2009
- Author(s)
  Xin-Qiu Yao、Hiroo Kenzaki, Shoji Takada
- 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(東京都)
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Coarse-grained simulation for understanding working mechanism of Fl-ATPase2008
- Author(s)
  Kei-ichi Okazaki, Shoji Takada
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 粗視化モデルによる双頭キネシンのステップ機構の解明2008
- Author(s)
  金田亮, 岡崎圭一, 高田彰二
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Adaptive multi-scale simulations of biomolecules for achieving high accuracy and high efficiency2008
- Author(s)
  Wenfei Li, Shoji Takada
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Protein folding network, and energy landscape, studied by parallel Wang-Landau sampling2008
- Author(s)
  Shoji Takada
- Organizer
  The 235th American Chemical Society National Meeting
- Place of Presentation
  New Orleans
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 計算機実験による生体分子モーターの作動原理探求2008
- Author(s)
  高田彰二
- Organizer
  産業総合研究所生命時報工学研究センター研究報告シンポジウム
- Place of Presentation
  産業総合研究所生命情報報工学研究センター
- Year and Date
  2008-11-07
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 構造変化とリガンド結合の共役メカニズム : induced-fit vs population-shift2008
- Author(s)
  岡崎圭一, 高田彰二
- Organizer
  第22回分子シミュレーション討論会
- Place of Presentation
  岡山大学
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 計算機実験による生体分子モーターの作動原理探求2008
- Author(s)
  高田彰二
- Organizer
  東北大理学部化学教室講演会
- Place of Presentation
  東北大学
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Coarse-grained simulation of complex of protein and DNA2008
- Author(s)
  検崎博生, 高田彰二
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 巨大生体分子複合系のマルチスケールシミュレーションに向けて2008
- Author(s)
  高田彰二
- Organizer
  バイオスーパーコンピューティング・シンポジウム(BSCS)
- Place of Presentation
  理化学研究所
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Folding energy landscape of small globular proteins at atomistic resolution revealed by multiscale modeling2008
- Author(s)
  Hiroaki Yoshii, Naoto Hori, Tomoshi Kameda, Shoii Takada
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 構造変化シミュレーションからの生体分子機械の作動原理探求2008
- Author(s)
  高田彰二
- Organizer
  大阪大学蛋白質研究所セミナー「蛋白質の構造変化の仕組みを探る」
- Place of Presentation
  大阪大学蛋白質研究所(吹田)
- Year and Date
  2008-03-03
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 構造変化とリガンド結合の共役メカニズム:induced-fit vs population-shift2008
- Author(s)
  岡崎圭一、高田彰二
- Organizer
  第22回分子シミュレーション討論会
- Place of Presentation
  岡山大学
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principle of biomolecular motors revealed by multi-scale simulations2008
- Author(s)
  Shoji Takada
- Organizer
  The 235th American Chemical Society National Meeting
- Place of Presentation
  New Orleans
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 膜融合を引き起こすウイルスタンパク質の大規模構造変化のシミュレーション研究2008
- Author(s)
  藤原慎司、高田彰二
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 構造変化シミュレーションからの生体分子機械の作動原理探求2008
- Author(s)
  高田彰二
- Organizer
  大阪大学蛋白質研究所セミナー「蛋白質の構造変化の仕組みを探る」
- Place of Presentation
  大阪大学蛋白質研究所(吹田)
- Year and Date
  2008-03-03
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] 計算機実験による生体分子モーターの作動原理探求2008
- Author(s)
  高田彰二
- Organizer
  産業総合研究所生命情報工学研究センター研究報告シンポジウム
- Place of Presentation
  産業総合研究所生命情報工学研究センター
- Year and Date
  2008-11-07
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 結合による構造変化と生体分子システムの作動原理2008
- Author(s)
  岡崎圭一、高田彰二
- Organizer
  第46回日本生物物理学会年会
- Place of Presentation
  福岡国際会議場
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 膜蛋白質のアミノ酸分布の非対称性について2007
- Author(s)
  金文珍、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 生体分子モーターの粗視化分子シミュレーション2007
- Author(s)
  高田彰二
- Organizer
  日本物理学会第62回年次大会
- Place of Presentation
  北海道大学札幌キャンパス
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Asymmetry in membrane protein sequence and structure: Glycine outside rule2007
- Author(s)
  Wenzhen Jin、Shoji Takada
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフィコ
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Wang-Landau samplingに基づくタンパク質のフォールディングエネルギー地形の解析2007
- Author(s)
  堀直人(神戸大)、高田彰二
- Organizer
  日本物理学会第62回年次大会
- Place of Presentation
  北海道大学札幌キャンパス
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] AAA+モーターによる基質蛋白質のトランスロケーション機構:構造ベース分子シミュレーション2007
- Author(s)
  古賀信服(京都大)、岡崎圭一、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] The working principle of biomolecular machines revealed by molecular simulations2007
- Author(s)
  Shoji Takada
- Organizer
  The 10th Asia Pacific Physical Conference
- Place of Presentation
  Pohang, Korea
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] ミオシンVの運動機構の解明に向けて-租視化モデルによる分子シミュレーションー2007
- Author(s)
  古賀理恵(京都大)、古賀信服、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] 計算機実験による生体分子システムの作動原理探求2007
- Author(s)
  高田彰二
- Organizer
  第1回論理薬研究会
- Place of Presentation
  岐阜大学
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] タンパク質フォールディングのエネルギー地形とネットワーク:マルチカノニカル・フラグメントアセンブリシミュレーション2007
- Author(s)
  堀直人, 高田彰二
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフイコ
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] タンパク質の構造変化とligand結合との共役の仕方:ligand結合の効果を取り入れたMultiple-basin energy landscape modelによるシミュレーション2007
- Author(s)
  岡崎圭一(神戸大)、高田彰二
- Organizer
  第7回日本蛋白質料学会年会
- Place of Presentation
  仙台国際センター
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] 粗視化モデルによるタンパク質の構造変化とリガンド結合の共役メカニズムの解明:分子モーターへの応用2007
- Author(s)
  岡崎圭一, 高田彰二
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフイコ
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] The working principle of biomolecular machines revealed by molecular simulations2007
- Author(s)
  Shoji Takada
- Organizer
  The 10th Asia Pacific Physical Conference
- Place of Presentation
  Pohang, Korea
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Working principle of molecular motors revealed by molecular simulations2007
- Author(s)
  Shoji Takada
- Organizer
  WORKSHOP ON COMPUTATIONAL BIOPHYSICS
- Place of Presentation
  Nagoya University
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] 粗視化モデルによるタンパク質の構造変化とリガンド結合の共役メカニズムの解明:分子モーターへの応用2007
- Author(s)
  岡崎圭一, 高田彰二
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフィコ
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] ミオシンVの運動機構の解明に向けて-粗視化モデルによる分子シミュレーション-2007
- Author(s)
  古賀理恵(京都大)、古賀信康、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] タンパク質の構造変化とligand結合との共役の仕方:ligand結合の効果を取り入れたMultip!e-basin energy landscape modelによるシミュレーション2007
- Author(s)
  岡崎圭一(神戸大)、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 分子シミュレーションによるFl-ATPase回転機構の研究2007
- Author(s)
  古賀信康、高田彰二
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフイコ
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] タンパク質の構造変化とligand結合との共役の仕方: ligand結合の効果を取り入れたMultiple-basin energy landscape modelによるシミュレーション2007
- Author(s)
  岡崎圭一、高田彰二
- 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
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 計算機実験による生体分子システムの作動原理探求2007
- Author(s)
  高田彰二
- Organizer
  第1回論理薬研究会
- Place of Presentation
  岐阜大学
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] 膜蛋白質のアミノ酸分布の非対称性について2007
- Author(s)
  全文珍(京都大)、高田彰二
- Organizer
  第7回日本蛋白質料学会年会
- Place of Presentation
  仙台国際センター
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] 生体分子モーターの粗視化分子シミュレーション2007
- Author(s)
  高田彰二
- Organizer
  日本物理学会第62回年次大会
- Place of Presentation
  北海道大学札幌キャンパス
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] Asymmetry in membrane protein sequence and structure: Glycine outside rule2007
- Author(s)
  Wenzhen Jin, Shoji Takada
- Organizer
  第45回日本生物物理学会年会
- Place of Presentation
  横浜パシフイコ
- Data Source
  KAKENHI-PROJECT-15076207
[Presentation] Working principle of molecular motors revealed by molecular simulations2007
- Author(s)
  Shoji Takada
- Organizer
  WORKSHOP ON COMPUTATIONAL BIOPHYSICS
- Place of Presentation
  Nagoya University
- Data Source
  KAKENHI-PROJECT-19370069
[Presentation] Coarse-Grained Modeling of Protein-DNA complexes
- Author(s)
  Shoji Takada
- Organizer
  Workshop on "Coarse-graining as a Frontier of Statistical Mechanics"
- Place of Presentation
  Santa Fe, USA
- Year and Date
  2014-06-16 – 2014-06-18
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Structural dynamics of nucleosome by coarse-grained model
- Author(s)
  検崎博生、高田彰二
- Organizer
  The 4D NUCLEOME 2014
- Place of Presentation
  安芸グランドホテル（廿日市）
- Year and Date
  2014-12-17 – 2014-12-20
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] 癌抑制転写因子p53はDNA上をどのように走査するか？
- Author(s)
  寺川剛, 検崎博生, 高田彰二
- Organizer
  天然変性蛋白質計算科学セミナー
- Place of Presentation
  御殿場高原（静岡市）
- Data Source
  KAKENHI-PUBLICLY-23107716
[Presentation] DNA unwinding mechanism at DNA replication initi ation of E.coli studied by coarse grained molecular dynamics simulation
- Author(s)
  清水将、片山勉、高田彰二
- 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（札幌市）
- Year and Date
  2014-09-25 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Structural sampling of polynucleosome by coarse-grained simulations
- Author(s)
  検崎博生、高田彰二
- 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（札幌市）
- Year and Date
  2014-09-25 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Knotted Structures in Refolding and Cotranslational Folding of Multi-domain Protein
- Author(s)
  Shoji Takada
- Organizer
  Biophysical Society Thematic Meeting on "Significance of Knotted Structures for Function of Proteins and Nucleic Acids"
- Place of Presentation
  Warsaw, Poland
- Year and Date
  2014-09-17 – 2014-09-20
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Coarse-Grained Modeling of Protein-DNA complexes
- Author(s)
  Shoji Takada
- Organizer
  Workshop on "Coarse-graining as a Frontier of Statistical Mechanics"
- Place of Presentation
  Santa Fe, USA
- Year and Date
  2014-06-16 – 2014-06-18
- Invited
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] Structural dynamics of tri-nucleosome studied by combination of coarse grained molecular simulation and SAXS
- Author(s)
  高木勇輔、小甲裕一、小田隆、立和名博昭、検崎博生、胡桃坂仁志、佐藤衛、池口満徳、高田彰二
- 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（札幌市）
- Year and Date
  2014-09-25 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Hierarchy in Biomolecular Systems: Chemical Reactions and Motions
- Author(s)
  高田彰二
- Organizer
  第848回分子研コロキウム
- Place of Presentation
  分子科学研究所（岡崎市）
- Invited
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Coarse-grained molecular simulations of large biomolecules:
- Author(s)
  Shoji Takada
- Organizer
  The 9th Fukui Inst Fundamental Chemistry Seminar
- Place of Presentation
  Fukui Institute for Fundamental Chemistry（Kyoto）
- Invited
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] 分子動力学シミュレーションを用いた大腸菌DNA複製開始複合体の構造及び形成メカニズムの解明
- Author(s)
  清水将、片山勉、高田彰二
- 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 – 2014-06-27
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Transition path time over the barrier in protein folding
- Author(s)
  Shoji Takada
- Organizer
  Indo-Japan Joint Workshop on “Frontiers in Molecular Spectroscopy: Fundamentals and Applications to Material and Biology”
- Place of Presentation
  Nara Prefectural New Public Hall
- Year and Date
  2014-11-25 – 2014-11-28
- Invited
- Data Source
  KAKENHI-PUBLICLY-26104517
[Presentation] English]:Coarse-grained simulation of chromatosome: H1-mediated dynamic compaction of nucleosome structure
- Author(s)
  白井伸宙、高田彰二
- 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（札幌市）
- Year and Date
  2014-09-25 – 2014-09-27
- Data Source
  KAKENHI-PROJECT-25251019
[Presentation] Multiscale computational approach to kinesin and F1-ATPase
- Author(s)
  Shoji Takada
- Organizer
  Telluride Science Research center meeting
- Place of Presentation
  Telluride Science Research center（USA）
- Invited
- Data Source
  KAKENHI-PROJECT-22370057
[Presentation] Recent progress in multiscale modeling of biomolecular systems
- Author(s)
  Shoji Takada
- Organizer
  The 3rd International Workshop on "Multiscale Characterizations of Biological Systems: From Molecules to Networks
- Place of Presentation
  BI YU YUAN, China
- Invited
- Data Source
  KAKENHI-PUBLICLY-23107716

1. 田村厚夫 (90273797)

# of Collaborated Projects: 2 results

# of Collaborated Products: 0 results
2. KRAH Alexander

# of Collaborated Projects: 2 results

# of Collaborated Products: 4 results
3. KINOSHITA Masahiro (90195339)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
4. SAITO Shinji (70262847)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
5. AKIYAMA Shuji (50391842)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
6. 検崎博生 (20402464)

# of Collaborated Projects: 1 results

# of Collaborated Products: 5 results
7. 剣持貴弘 (10389009)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
8. 石本志高 (30391858)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
9. 山本哲也 (40610027)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
10. 寺川剛 (20809652)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
11. ONO Jun-ichi

# of Collaborated Projects: 1 results

# of Collaborated Products: 3 results
12. MORI Toshifumi

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
13. KODA Shin-ichi

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
14. 末武勲

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
15. 杉田有治

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
16. 胡桃坂仁志

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
17. 小澤岳昌

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
18. 西山朋子

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
19. 譚丞

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
20. 久保進太郎

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
21. Brandani Giovanni

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
22. 竹俣直道

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
23. 三留規誉

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results
24. 齊藤真司

# of Collaborated Projects: 0 results

# of Collaborated Products: 3 results

Takada Shoji 高田 彰二

TAKADA Shoji 高田 彰二

Research Projects

Research Products

Co-Researchers

細胞骨格形成と相分離の共役機構の分子シミュレーション研究Principal Investigator

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細胞内複雑環境下の相分離による生体分子凝縮体形成の生物物理Principal Investigator

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Development of next-generation coarse-grained simulations towards analysis of cellular-scale assemblyPrincipal Investigator

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Multiscale Theories of Genome ModalityPrincipal Investigator

Principal Investigator

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ヌクレオソーム動構造とそのエピジェネティック制御の分子シミュレーション研究Principal Investigator

Principal Investigator

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Theoretical study on transition path search algorithms in complex biomolecular systemsPrincipal Investigator

Principal Investigator

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クロマチン構造と共役した転写因子動態の分子シミュレーション研究Principal Investigator

Principal Investigator

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柔らかいタンパク質・DNA分子認識のマルチスケール計算研究Principal Investigator

Principal Investigator

Project Period (FY)

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Review Section

Research Institution

転写因子DNA探索のエネルギーランドスケープ理論：速度‐親和性パラドックスPrincipal Investigator

Principal Investigator

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Review Section

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Structural plasticity and functional integration of multi-functional and multi-domain proteins: From structures to systemsPrincipal Investigator

Principal Investigator

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Theoretical studies of conformation transition dynamics and functions of biomolecules

Principal Investigator

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Ｆ型ＡＴＰ合成酵素のＦＩ複合体の構造、機能および選択性Principal Investigator

Principal Investigator

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Research Institution

蛋白質の大振幅ゆらぎの理論解析：構造変化経路から天然変性までPrincipal Investigator

Principal Investigator

Project Period (FY)

Takada Shoji 高田彰二

TAKADA Shoji 高田彰二

[Book] 生物物理55(1)：計算科学と実験科学の組み合わせにより明らかになった多剤排出トランスポーターAcrBの分子メカニズム2015

[Book] 生物物理55(1)：計算科学と実験科学の組み合わせにより明らかになった多剤排出トランスポーターAcrBの分子メカニズム2015