Koike Ryotaro 小池亮太郎

… Alternative Names

小池亮太郎コイケリヨウタロウ

Ryotaro Koike 小池亮太郎

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Researcher Number	20381577
Other IDs
Affiliation (Current)	2025: 名古屋大学, 情報学研究科, 助教
Affiliation (based on the past Project Information) *help	2019 – 2023: 名古屋大学, 情報学研究科, 助教 2016: 名古屋大学, 情報科学研究科, 助教
Review Section/Research Field	Principal Investigator Complex systems / Basic Section 62010:Life, health and medical informatics-related Except Principal Investigator Basic Section 32010:Fundamental physical chemistry-related / Biophysics
Keywords	Principal Investigator データベース解析 / 構造機能相関 / データベース / 構造バイオインフォマティクス / アクチン / 分子シミュレーション / 構造変化 / 蛋白質構造機能相関 / 動的構造 Except Principal Investigator ph, 分子夾雑状態 … More / pH, 分子夾雑状態 / ph / ビッグデータ解析 / 分子夾雑系 / 配置選択定ｐH 法 / 運動樹法 / Motion Tree method / 分子夾雑状態 / pH / 時系列クラスタリング解析 / ビックデータ解析 / Motion Tree 法 / 夾雑状態分子物性 / 定pH法 / 分子シミュレーション / 蛋白質構造動態 / 蛋白質相互作用 / 構造解析 / 蛋白質複合体 / アクチン細胞骨格 / アクチン重合体 / X線蛋白質結晶学 / 電子顕微鏡 / 蛋白質複合体構造 / 電子顕微鏡単粒子解析 / X線結晶構造解析 / 重合・脱重合 / ATP加水分解 / 筋肉細い線維 / アクチン / クライオ電子顕微鏡法 / Ｘ線結晶構造解析 / 筋収縮の調節 / アクチン・トレッドミリング / 細胞骨格 / 細胞運動 Less

大量のシミュレーションデータによるアクチンのファイバー形成に関わる構造変化の解析Principal Investigator
- Principal Investigator
  
  小池亮太郎
- Project Period (FY)
  2023 – 2026
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Nagoya University
生体発動分子ATPアーゼの構造変化と機能発現メカニズムの網羅的解析Principal Investigator
- Principal Investigator
  
  小池亮太郎
- Project Period (FY)
  2021 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Complex systems
- Research Institution
  Nagoya University
Mechanism of allosteric dissociation by regulator proteins of actin filament elongationPrincipal Investigator
- Principal Investigator
  
  Koike Ryotaro
- Project Period (FY)
  2019 – 2022
- Research Category
  
  Grant-in-Aid for Scientific Research (C)
- Review Section
  
  Basic Section 62010:Life, health and medical informatics-related
- Research Institution
  Nagoya University
生体発動分子ATPアーゼ活性部位の立体構造比較と分類Principal Investigator
- Principal Investigator
  
  小池亮太郎
- Project Period (FY)
  2019 – 2020
- Research Category
  
  Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
- Review Section
  
  Complex systems
- Research Institution
  Nagoya University
Integration of Data Science and Computational Chemistry in pH-Dependent Environments
- Principal Investigator
  
  Nagaoka Masataka
- Project Period (FY)
  2019 – 2021
- Research Category
  
  Grant-in-Aid for Scientific Research (B)
- Review Section
  
  Basic Section 32010:Fundamental physical chemistry-related
- Research Institution
  Nagoya University
Protein-protein interactions that make the actin filament functional
- Principal Investigator
  
  Maeda Yuichiro
- Project Period (FY)
  2014 – 2016
- Research Category
  
  Grant-in-Aid for Scientific Research (A)
- Research Field
  
  Biophysics
- Research Institution
  Nagoya University

All 2023 2022 2021 2020 2019 2016 2014

All Journal Article Presentation Book

[Book] Protein Structural Changes Based on Structural Comparison (Chapter 8 of eBook "Practical Guide to Life Science Databases" edited by Imad Abugessaisa, Takeya Kasukawa)2022
- Author(s)
  Koike Ryotaro, Ota Motonori
- Total Pages
  224
- Publisher
  Springer Nature
- ISBN
  9789811658129
- Data Source
  KAKENHI-PUBLICLY-21H00394
[Book] Protein Structural Changes Based on Structural Comparison (Chapter 8 of eBook "Practical Guide to Life Science Databases" edited by Imad Abugessaisa, Takeya Kasukawa)2022
- Author(s)
  Koike Ryotaro, Ota Motonori
- Total Pages
  224
- Publisher
  Springer Nature
- ISBN
  9789811658129
- Data Source
  KAKENHI-PROJECT-19K12217
[Journal Article] Elastic network model reveals distinct flexibilities of capping proteins bound to CARMIL and twinfilin‐tail2023
- Author(s)
  Koike Ryotaro、Ota Motonori
- Journal Title
  
  Proteins: Structure, Function, and Bioinformatics
  
  Volume: 92 Issue: 1 Pages: 37-43
- DOI
  10.1002/prot.26560
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-23K11318
[Journal Article] Rational design of phase separating peptides based on phase separating protein sequence of p532023
- Author(s)
  Kamagata Kiyoto、Hando Atsumi、Ariefai Maulana、Iwaki Nanako、Kanbayashi Saori、Koike Ryotaro、Ikeda Keisuke
- Journal Title
  
  Scientific Reports
  
  Volume: 13 Issue: 1 Pages: 5648-5648
- DOI
  10.1038/s41598-023-32632-2
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PUBLICLY-21H00394, KAKENHI-PUBLICLY-22H05582, KAKENHI-PROJECT-23K27311
[Journal Article] Structures and mechanisms of actin ATP hydrolysis2022
- Author(s)
  Kanematsu Yusuke、Narita Akihiro、Oda Toshiro、Koike Ryotaro、Ota Motonori、Takano Yu、Moritsugu Kei、Fujiwara Ikuko、Tanaka Kotaro、Komatsu Hideyuki、Nagae Takayuki、Watanabe Nobuhisa、Iwasa Mitsusada、Ma?da Yuichiro、Takeda Shuichi
- Journal Title
  
  Proceedings of the National Academy of Sciences
  
  Volume: 119 Issue: 43
- DOI
  10.1073/pnas.2122641119
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K03883, KAKENHI-PROJECT-20K06522, KAKENHI-PROJECT-22K06172, KAKENHI-PLANNED-20H05883, KAKENHI-PROJECT-19K12217, KAKENHI-PUBLICLY-21H00394, KAKENHI-PUBLICLY-22H04813, KAKENHI-PLANNED-20H05932
[Journal Article] Structural insights into the regulation of actin capping protein by twinfilin C-terminal tail2021
- Author(s)
  Shuichi Takeda, Ryotaro Koike, Ikuko Fujiwara, Akihiro Narita, Makoto Miyata, Motonori Ota and Yuichiro Maeda
- Journal Title
  
  J Mol Biol
  
  Volume: 433 Issue: 9 Pages: 166891-166891
- DOI
  10.1016/j.jmb.2021.166891
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-20K06522, KAKENHI-PUBLICLY-21H00394, KAKENHI-PROJECT-19K12217, KAKENHI-PROJECT-20K06591, KAKENHI-PLANNED-20H05932
[Journal Article] Crystal structure of human V-1 in the apo form2021
- Author(s)
  Shuichi Takeda, Ryotaro Koike, Takayuki Nagae, Ikuko Fujiwara, Akihiro Narita, Yuichiro Maeda, Motonori Ota
- Journal Title
  
  Acta Crystallogr F Struct Biol Commun
  
  Volume: 77 Issue: 1 Pages: 13-21
- DOI
  10.1107/s2053230x20016829
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-19K12217, KAKENHI-PROJECT-20K06522, KAKENHI-PROJECT-20K06591, KAKENHI-PUBLICLY-19H05390, KAKENHI-PLANNED-20H05932, KAKENHI-PROJECT-18H03331
[Journal Article] Protein kinases phosphorylate long disordered regions in intrinsically disordered proteins2019
- Author(s)
  Koike Ryotaro、Amano Mutsuki、Kaibuchi Kozo、Ota Motonori
- Journal Title
  
  Protein Science
  
  Volume: 29 Issue: 2 Pages: 564-571
- DOI
  10.1002/pro.3789
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K12217, KAKENHI-PUBLICLY-19H05390, KAKENHI-PROJECT-18H03331, KAKENHI-PROJECT-17K07383
[Journal Article] All Atom Motion Tree detects side chain-related motions and their coupling with domain motion in proteins2019
- Author(s)
  Koike Ryotaro、Ota Motonori
- Journal Title
  
  Biophysics and Physicobiology
  
  Volume: 16 Issue: 0 Pages: 280-286
- DOI
  10.2142/biophysico.16.0_280
- NAID
  130007752770
- ISSN
  2189-4779
- Language
  English
- Peer Reviewed / Open Access
- Data Source
  KAKENHI-PROJECT-19K12217, KAKENHI-PUBLICLY-19H05390, KAKENHI-PROJECT-18H03331
[Journal Article] Comprehensive analysis of motions in molecular dynamics trajectories of the actin capping protein and its inhibitor complexes2016
- Author(s)
  Koike, R., Takeda, S., Maeda, Y., Ota, M.
- Journal Title
  
  Proteins
  
  Volume: 未定 Issue: 7 Pages: 948-956
- DOI
  10.1002/prot.25043
- Peer Reviewed
- Data Source
  KAKENHI-PROJECT-25650064, KAKENHI-PROJECT-26251017, KAKENHI-PROJECT-16K14708
[Presentation] ATPアーゼの活性部位における水分子の配置2023
- Author(s)
  小池亮太郎
- Organizer
  第23回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-23K11318
[Presentation] Elastic network model reveals distinct flexibilities of capping proteins bound to CARMIL and twinfilin-tail2023
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第60回日本生物物理学会
- Data Source
  KAKENHI-PROJECT-23K11318
[Presentation] Structural changes of ATPase complexes in the PDB2022
- Author(s)
  Ryotaro Koike
- Organizer
  第60回日本生物物理学会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural changes of ATPase complexes in the PDB2022
- Author(s)
  Ryotaro Koike
- Organizer
  第60回日本生物物理学会
- Data Source
  KAKENHI-PUBLICLY-21H00394
[Presentation] 天然変性タンパク質データベース：IDEAL2022
- Author(s)
  ANBO Hiroto, SAKUMA Koya, KADO Yumiko, SAKAMOTO Shigetaka, HOSODA Kazuo, SHIKAMA Noriko, DAIYASU Hiromi, TAKAGI Daisuke, YAMAGUCHI Atsuko, HATANAKA Hideki, KOIKE Ryotaro, HIROAKI Hidekazu, FUKUCHI Satoshi, OTA Motonori
- Organizer
  トーゴーの日シンポジウム2022
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural flexibility of actin in molecular dynamics simulation2021
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  環太平洋国際化学会議2021
- Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-21H00394
[Presentation] Elastic network model analysis shows distinct flexibilities of capping protein bound to CARMIL or twinfilin2021
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第59回日本生物物理学会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural flexibility of actin in molecular dynamics simulation2021
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  環太平洋国際化学会議2021
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] 異なる機能状態にあるアクチンの構造ゆらぎとその相関関係2021
- Author(s)
  小池亮太郎，森次圭，太田元規
- Organizer
  第21回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] 異なる機能状態にあるアクチンの構造ゆらぎとその相関関係2021
- Author(s)
  小池亮太郎，森次圭，太田元規
- Organizer
  第21回日本蛋白質科学会年会
- Data Source
  KAKENHI-PUBLICLY-21H00394
[Presentation] Structural flexibility of actin studied by molecular dynamics simulation2020
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第58回日本生物物理学会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural flexibility of actin studied by molecular dynamics simulation2020
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第58回日本生物物理学会
- Data Source
  KAKENHI-PUBLICLY-19H05390
[Presentation] タンパク質ータンパク質間相互作用の有向ネットワークが示す細胞内情報伝達2019
- Author(s)
  葉山雄揮，小池亮太郎，太田元規
- Organizer
  第19回日本蛋白質科学会年会
- Data Source
  KAKENHI-PUBLICLY-19H05390
[Presentation] 全原子Motion Treeとドメイン運動に伴う側鎖の運動2019
- Author(s)
  小池亮太郎，太田元規
- Organizer
  第19回日本蛋白質科学会年会
- Data Source
  KAKENHI-PUBLICLY-19H05390
[Presentation] Full-atom Motion Tree detects side-chain motions and their coupling with domain motions2019
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第57回日本生物物理学会
- Data Source
  KAKENHI-PUBLICLY-19H05390
[Presentation] Full-atom Motion Tree detects side-chain motions and their coupling with domain motions2019
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  第57回日本生物物理学会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural flexibility of actin monomer in molecular dynamics simulation2019
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  11th Toyota Riken International Workshop, Actin Workshop
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] タンパク質ータンパク質間相互作用の有向ネットワークが示す細胞内情報伝達2019
- Author(s)
  葉山雄揮，小池亮太郎，太田元規
- Organizer
  第19回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] Structural flexibility of actin monomer in molecular dynamics simulation2019
- Author(s)
  Ryotaro Koike, Motonori Ota
- Organizer
  11th Toyota Riken International Workshop, Actin Workshop
- Int'l Joint Research
- Data Source
  KAKENHI-PUBLICLY-19H05390
[Presentation] 全原子Motion Treeとドメイン運動に伴う側鎖の運動2019
- Author(s)
  小池亮太郎，太田元規
- Organizer
  第19回日本蛋白質科学会年会
- Data Source
  KAKENHI-PROJECT-19K12217
[Presentation] How the binding of CP (capping protein) to the B-end of actin filaments is regulated2014
- Author(s)
  Takeda S., Koike R., Ota M., Maeda Y.
- Organizer
  43rd European Muscle Conference
- Place of Presentation
  オーストリア
- Year and Date
  2014-09-11
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-26251017
[Presentation] Regulation of capping protein (CP=CapZ) association with the B-end of actin filament2014
- Author(s)
  Takeda S., Koike R., Ota M., Maeda Y
- Organizer
  Gordon Research Conference "Muscle and Molecular Motors"
- Place of Presentation
  USA
- Year and Date
  2014-07-06
- Int'l Joint Research
- Data Source
  KAKENHI-PROJECT-26251017

1. Maeda Yuichiro (10321811)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
2. Shuichi Takeda (50509081)

# of Collaborated Projects: 1 results

# of Collaborated Products: 4 results
3. Tomoharu Matsumoto (30392880)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
4. Mahito Kikumoto (20462880)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
5. Kayo Maeda (00321810)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
6. Motonori Ota (40290895)

# of Collaborated Projects: 1 results

# of Collaborated Products: 2 results
7. Nagaoka Masataka (50201679)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
8. 成田哲博 (30360613)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
9. 北村勇吉 (00855702)

# of Collaborated Projects: 1 results

# of Collaborated Products: 0 results
10. 森次圭

# of Collaborated Projects: 0 results

# of Collaborated Products: 1 results

Koike Ryotaro 小池 亮太郎

小池 亮太郎 コイケ リヨウタロウ

Ryotaro Koike 小池 亮太郎

Research Projects

Research Products

Co-Researchers

大量のシミュレーションデータによるアクチンのファイバー形成に関わる構造変化の解析Principal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

生体発動分子ATPアーゼの構造変化と機能発現メカニズムの網羅的解析Principal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Mechanism of allosteric dissociation by regulator proteins of actin filament elongationPrincipal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

生体発動分子ATPアーゼ活性部位の立体構造比較と分類Principal Investigator

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Integration of Data Science and Computational Chemistry in pH-Dependent Environments

Principal Investigator

Project Period (FY)

Research Category

Review Section

Research Institution

Protein-protein interactions that make the actin filament functional

Principal Investigator

Project Period (FY)

Research Category

Research Field

Research Institution

[Book] Protein Structural Changes Based on Structural Comparison (Chapter 8 of eBook "Practical Guide to Life Science Databases" edited by Imad Abugessaisa, Takeya Kasukawa)2022

Author(s)

Total Pages

Publisher

ISBN

Data Source

[Book] Protein Structural Changes Based on Structural Comparison (Chapter 8 of eBook "Practical Guide to Life Science Databases" edited by Imad Abugessaisa, Takeya Kasukawa)2022

Author(s)

Total Pages

Publisher

ISBN

Data Source

[Journal Article] Elastic network model reveals distinct flexibilities of capping proteins bound to CARMIL and twinfilin‐tail2023

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Rational design of phase separating peptides based on phase separating protein sequence of p532023

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Structures and mechanisms of actin ATP hydrolysis2022

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Structural insights into the regulation of actin capping protein by twinfilin C-terminal tail2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Crystal structure of human V-1 in the apo form2021

Author(s)

Journal Title

DOI

Data Source

[Journal Article] Protein kinases phosphorylate long disordered regions in intrinsically disordered proteins2019

Koike Ryotaro 小池亮太郎

小池亮太郎コイケリヨウタロウ

Ryotaro Koike 小池亮太郎