KEIO RESEARCHERS INFORMATION SYSTEM

Career 【 Display / hide 】

Career 【 Display / hide 】

• 2007.04

  -

  2011.03

  横浜市立大学大学院, 生命ナノシステム科学研究科, 博士研究員

• 2011.04

  -

  2015.03

  慶應義塾大学, 理工学部　物理学科, 助教

• 2015.04

  -

  Present

  慶應義塾大学, 理工学部　物理学科, 専任講師

Academic Background 【 Display / hide 】

Academic Background 【 Display / hide 】

• 1998.04

  -

  2002.03

  The University of Tokyo, 工学部, マテリアル工学科

  University, Graduated, Other

• 2002.04

  -

  2004.03

  The University of Tokyo, 理学系研究科, 物理学専攻

  Graduate School, Completed, Master's course

• 2004.04

  -

  2007.03

  The University of Tokyo, 理学系研究科, 物理学科

  Graduate School, Completed, Doctoral course

Academic Degrees 【 Display / hide 】

Academic Degrees 【 Display / hide 】

• 博士（理学）, The University of Tokyo, Coursework, 2007.03

Research Areas 【 Display / hide 】

Research Areas 【 Display / hide 】

• Natural Science / Biophysics, chemical physics and soft matter physics

Research Keywords 【 Display / hide 】

Research Keywords 【 Display / hide 】

• 蛋白質ダイナミクス

• 蛋白質水和構造

• 分子動力学シミュレーション

• Ｘ線溶液散乱

Research Themes 【 Display / hide 】

Research Themes 【 Display / hide 】

• 分子シミュレーションと実験の融合的解析技術の開発, 

  2007.04

  -

  Present

• 蛋白質ダイナミクスの可視化, 

  2007.04

  -

  Present

• 蛋白質水和構造の物性研究, 

  2002.04

  -

  Present

• 蛋白質フォールディングの原理, 

  2002.04

  -

  Present

Books 【 Display / hide 】

Books 【 Display / hide 】

• Water and Biomolecules

  Kunihiro Kuwajima, Tomotaka Oroguchi, Takashi Nakamura, Mitsunori Ikeguchi, Tomotaka Oroguchi, Springer-Verlag Berlin Heidelberg, 2009.01

  Scope: Experimental and simulation studies of the folding/unfolding of goat alpha-lactalbumin

Papers 【 Display / hide 】

Papers 【 Display / hide 】

• Internal dynamics of multidomain protein as revealed by an optimized neutron spin echo measurement and all-atom molecular dynamics simulation

  Rintaro Inoue*, Tomotaka Oroguchi*, Takashi Oda*, Bela Farago, Anne Martel, Lionel Porcar, Mamoru Sato, Masaaki Sugiyama (*equally contributed)

  Physical Review Research 5 ( 4 ) 043154 2023.12

  Research paper (scientific journal), Joint Work, Lead author, Accepted

• Common architectures in cyanobacteria Prochlorococcus cells visualized by X-ray diffraction imaging using X-ray free electron laser

  Amane Kobayashi, Yuki Takayama, Takeshi Hirakawa, Koji Okajima, Mao Oide, Tomotaka Oroguchi, Yayoi Inui, Masaki Yamamoto, Sachihiro Matsunaga, Masayoshi Nakasako

  Scientific Reports 11 ( 1 ) 3877 2021.12

  Research paper (scientific journal), Joint Work, Accepted

  • Access to Document (DOI)

• Domain organization in plant blue-light receptor phototropin2 of arabidopsis thaliana studied by small-angle x-ray scattering

  Masayoshi Nakasako, Mao Oide, Yuki Takayama, Tomotaka Oroguchi, Koji Okajima

  International journal of molecular sciences 21 ( 18 ) 6638 2020.09

  Joint Work, Accepted

  • Access to Document (DOI)

• Assessment of force field accuracy using cryogenic electron microscopy data of hyper-thermostable glutamate dehydrogenase

  Tomotaka Oroguchi, Mao Oide, Taiki Wakabayashi, Masayoshi Nakasako

  Journal of Physical Chemistry B 124 ( 39 ) 8479 - 8494 2020.10

  Research paper (scientific journal), Joint Work, Lead author, Corresponding author, Accepted

  • Access to Document (DOI)

• Energy landscape of domain motion in glutamate dehydrogenase deduced from cryo-electron microscopy

  Mao Oide, Takayuki Kato, Tomotaka Oroguchi, Masayoshi Nakasako

  FEBS Journal 287 ( 16 ) 3472 - 3493 2020.08

  Research paper (scientific journal), Joint Work, Accepted

  • Access to Document (DOI)

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Papers, etc., Registered in KOARA 【 Display / hide 】

Papers, etc., Registered in KOARA 【 Display / hide 】

• Visualization of protein dynamics in molecular crowding environment

  Oroguchi, Tomotaka

  科学研究費補助金研究成果報告書 2019

• Effects of hydrogen-bond directionality on stabilities of protein secondary structures

  Oroguchi, Tomotaka

  学事振興資金研究成果実績報告書 (慶應義塾大学)  2018

• Role of water molecules in biomolecular functions and interactions

  Oroguchi, Tomotaka

  科学研究費補助金研究成果報告書 2015

Reviews, Commentaries, etc. 【 Display / hide 】

Reviews, Commentaries, etc. 【 Display / hide 】

• 水素結合方向性における非共有結合対の影響: 分子動力学シミュレーションによる評価

  苙口 友隆

  アンサンブル 23   176 - 181 2021

  Article, review, commentary, editorial, etc. (scientific journal), Single Work, Lead author, Last author, Corresponding author

• Methods and application of coherent X-ray diffraction imaging of noncrystalline particles

  Masayoshi Nakasako, Amane Kobayashi, Yuki Takayama, Kenta Asakura, Mao Oide, Koji Okajima, Tomotaka Oroguchi, Masaki Yamamoto

  (Biophysical Reviews)  12   541 - 567 2020

  Article, review, commentary, editorial, etc. (scientific journal), Joint Work

• 水和構造によって制御される蛋白質の機能的ドメイン運動

  苙口 友隆、中迫雅由

  生物物理 58   204 - 206 2018

  Article, review, commentary, editorial, etc. (scientific journal), Joint Work, Lead author

• 生物細胞の低温X線回折イメージング

  中迫雅由、高山裕貴、小林周、山本高寛、大出真央、岡島公司、苙口 友隆、山本雅貴

  放射光 31   189 - 201 2018

  Article, review, commentary, editorial, etc. (scientific journal), Joint Work

• Ｘ線自由電子レーザーを用いた非結晶粒子のコヒーレントＸ線回折イメージング

  中迫雅由、苙口 友隆、関口優希、小林周、橋本早紀、山本雅貴、引間孝明、米倉功治、高山裕貴、眞木さおり、高橋幸生、鈴木明大、松永幸大、乾弥生、胡桃坂仁志、市川雄一、星貴彦

  日本結晶学会誌 55   24 - 31 2014

  Article, review, commentary, editorial, etc. (scientific journal), Joint Work

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Presentations 【 Display / hide 】

Presentations 【 Display / hide 】

• Optimization of MD-derived conformational ensemble in information content space and its application to experimental X-ray solution scattering data

  Tomotaka Oroguchi

  TSRC Proten Dynamiccs Workshop 2023, 

  2023.07

  , 

  Oral presentation (invited, special)

• Protein conformational fluctuations and hydration structures investigated by the combination of MD simulations and X-ray experiments

  Tomotaka Oroguchi

  TSRC Protein Dynamics Workshop 2017, 

  2017.08

  , 

  Oral presentation (invited, special)

• Protein functional dynamics investigated by small-angle X-ray solution scattering and molecular dynamics simulation

  Tomotaka Oroguchi

  Okazaki Conference 2017, 

  2017.03

  , 

  Oral presentation (invited, special)

• Nanoscale wetting and drying processes dominate protein functional motions

  Tomotaka Oroguchi

  TSRC Protein Dynamics Workshop 2015, 

  2015.08

  , 

  Oral presentation (invited, special)

• Protein dynamics investigated by small-angle x-ray solution scattering and molecular dynamics simulation

  Tomotaka Oroguchi

  The 4^th Japan-France Joint Seminar (播磨、兵庫県) , 

  2013.01

  , 

  Oral presentation (invited, special)

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Research Projects of Competitive Funds, etc. 【 Display / hide 】

Research Projects of Competitive Funds, etc. 【 Display / hide 】

• 水素結合の方向性を厳密に取り扱った高信頼度な蛋白質分子力場の開発

  2021.04

  -

  2024.03

  MEXT, JSPS, Grant-in-Aid for Scientific Research, 基盤研究(C), Research grant, Principal investigator

• 新世代中性子構造生物学の開拓

  2018.06

  -

  2023.03

  MEXT, JSPS, Grant-in-Aid for Scientific Research, 基盤研究(S), Research grant, Coinvestigator(s)

• 生体分子の機能発揮機構における水和構造の役割の解明

  2017.04

  -

  2021.03

  MEXT, JSPS, Grant-in-Aid for Scientific Research, 若手研究(A), Research grant, Principal investigator

• 分子クラウディング環境下における生体分子の機能的構造揺らぎの解析

  2017.06

  -

  2020.03

  MEXT, JSPS, Grant-in-Aid for Scientific Research, 挑戦的研究(萌芽), Research grant, Principal investigator

• 分子シミュレーションと溶液X線散乱実験を用いた生体分子の構造揺らぎの解析

  2016.04

  -

  2017.03

  慶應義塾大学, Keio Gijuku Academic Development Funds, Research grant, Principal investigator

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Courses Taught 【 Display / hide 】

Courses Taught 【 Display / hide 】

• PHYSICS LABORATORIES 2

  2024

• PHYSICS LABORATORIES 1

  2024

• PHYSICS A

  2024

• LITERATURE OF PHYSICS

  2024

• LABORATORY IN SCIENCE

  2024

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Social Activities 【 Display / hide 】

Social Activities 【 Display / hide 】

• 日本放射光学会学会誌 編集委員

  2015.10

  -

  2017.09

• 日本放射光学会第６回若手研究会 組織委員

  2014.08

• International Symposium on Protein Folding and its Biological Significance 組織委員

  2013.03

• 生物物理若手の会第44回夏の学校 組織委員

  2004.08

• 生物物理若手の会 運営委員

  2003.09

  -

  2004.08