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Visualizing protein motions using molecular photoswitching

Research Project

Project/Area Number 20H02695
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 32010:Fundamental physical chemistry-related
Research InstitutionKyoto University (2023)
Osaka University (2020-2022)

Principal Investigator

Misao Mizuno  京都大学, 理学研究科, 准教授 (10464257)

Project Period (FY) 2020-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000)
Fiscal Year 2023: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
Fiscal Year 2022: ¥3,380,000 (Direct Cost: ¥2,600,000、Indirect Cost: ¥780,000)
Fiscal Year 2021: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2020: ¥6,630,000 (Direct Cost: ¥5,100,000、Indirect Cost: ¥1,530,000)
Keywords時間分解共鳴ラマン分光法 / タンパク質 / 分子光スイッチング / タンパク質ダイナミクス / 時間分解共鳴ラマン分光計測 / 時間分解紫外共鳴ラマン分光法
Outline of Research at the Start

タンパク質機能発現の分子機構を明らかにするため、これまでに光受容タンパク質を対象とした時間分解分光計測が行われてきた。本研究では、光受容タンパク質以外の普遍的なタンパク質反応に対して、小分子の光化学反応に伴う構造変化を機能発現スイッチとして利用した時間分解共鳴ラマン分光計測により、原子レベルの空間スケールかつピコ秒からサブ秒までの幅広い時間スケールで過渡的なタンパク質分子運動の観測方法を確立する。

Outline of Final Research Achievements

To visualize chemical reactions associated with structural changes in a wide range of proteins, time-resolved resonance Raman spectroscopic methods were developed using ultrafast molecular photoswitching. The photoreaction of a small molecule, such as photoisomerization of azobenzene introduced into the protein backbone, was used for switching to form three-dimensional structures of targeted proteins. We did not obtain sufficient amount of photoswitching protein samples for spectroscopic measurements. The time-resolved spectroscopy system was improved from the existing system. We demonstrated that the performance of the spectroscopic system was sufficient to follow the chemical reactions of targeted proteins.

Academic Significance and Societal Importance of the Research Achievements

分子光スイッチングは、生体分子の高速な構造制御を可能にする。ダイナミクス計測技術が進展し、スイッチ分子の多岐化・導入部位のノウハウの蓄積により、より汎用性の高い実験手法へと拡張できる。光スイッチングは、機能性高分子に対する応用も可能である。これにより、光を利用した機能性分子の反応制御が大いに期待できる。

Report

(5 results)
  • 2023 Annual Research Report   Final Research Report ( PDF )
  • 2022 Annual Research Report
  • 2021 Annual Research Report
  • 2020 Annual Research Report
  • Research Products

    (45 results)

All 2024 2023 2022 2021 2020 Other

All Int'l Joint Research (1 results) Journal Article (10 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 10 results,  Open Access: 2 results) Presentation (32 results) (of which Int'l Joint Research: 6 results,  Invited: 9 results) Remarks (2 results)

  • [Int'l Joint Research] Weizmann Institute of Science(イスラエル)

    • Related Report
      2022 Annual Research Report
  • [Journal Article] Cis-Trans Reisomerization Preceding Reprotonation of the Retinal Chromophore Is Common to the Schizorhodopsin Family: A Simple and Rational Mechanism for Inward Proton Pumping2024

    • Author(s)
      Taito Urui, Kouhei Hayashi, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 128 Issue: 3 Pages: 744-754

    • DOI

      10.1021/acs.jpcb.3c07510

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Unique Vibrational Characteristics and Structures of the Photoexcited Retinal Chromophore in Ion-Pumping Rhodopsins2023

    • Author(s)
      Li Zixuan、Mizuno Misao、Ejiri Tomo、Hayashi Shigehiko、Kandori Hideki、Mizutani Yasuhisa
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 127 Issue: 46 Pages: 9873-9886

    • DOI

      10.1021/acs.jpcb.3c02146

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Heme Pocket Structure and Its Functional Implications in an Ancestral Globin Protein2023

    • Author(s)
      Yu Iritani, Haruto Ishikawa, Misao Mizuno, and Yasuhisa Mizutani,
    • Journal Title

      Biochemistry

      Volume: 62 Issue: 18 Pages: 2727-2737

    • DOI

      10.1021/acs.biochem.3c00203

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Dependence of Vibrational Energy Transfer on Distance in a Four-helix Bundle Protein: Equidistant Increments with the Periodicity of α Helices2022

    • Author(s)
      Satoshi Yamashita,Misao Mizuno, Kazuhiro Takemura, Akio Kitao, and Yasuhisa Mizutani
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: - Issue: 17 Pages: 3283-3290

    • DOI

      10.1021/acs.jpcb.2c00956

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Cis-Trans Reisomerization Precedes Reprotonation of the Retinal Chromophore in the Photocycle of Schizorhodopsin 42022

    • Author(s)
      Hayashi Kouhei、Mizuno Misao、Kandori Hideki、Mizutani Yasuhisa
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 61 Issue: 33

    • DOI

      10.1002/anie.202203149

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Contact-Mediated Retinal-Opsin Coupling Enables Proton Pumping in Gloeobacter Rhodopsin2022

    • Author(s)
      Shionoya Tomomi、Mizuno Misao、Kandori Hideki、Mizutani Yasuhisa
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 126 Issue: 40 Pages: 7857-7869

    • DOI

      10.1021/acs.jpcb.2c04208

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Origin of a Double-Band Feature in the Ethylenic C=C Stretching Modes of the Retinal Chromophore in Heliorhodopsins2022

    • Author(s)
      Urui Taito、Das Ishita、Mizuno Misao、Sheves Mordechai、Mizutani Yasuhisa
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 126 Issue: 43 Pages: 8680-8688

    • DOI

      10.1021/acs.jpcb.2c04883

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] High Suitability of Tryptophan Residues as a Spectroscopic Thermometer for Local Temperature in Proteins under Nonequilibrium Conditions2022

    • Author(s)
      Satoshi Yamashita, Misao Mizuno, Yasuhisa Mizutani
    • Journal Title

      J. Chem. Phys.

      Volume: 156 Issue: 7 Pages: 075101-075101

    • DOI

      10.1063/5.0079797

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Resonance Raman Determination of Chromophore Structures of Heliorhodopsin Photointermediates2021

    • Author(s)
      Urui Taito、Mizuno Misao、Otomo Akihiro、Kandori Hideki、Mizutani Yasuhisa
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 125 Issue: 26 Pages: 7155-7162

    • DOI

      10.1021/acs.jpcb.1c04010

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Strongly hydrogen-bonded Schiff base and adjoining polyene twisting in the retinal chromophore of schizorhodopsins2021

    • Author(s)
      Tomomi Shionoya, Misao Mizuno, Manish Singh, Hideki Kandori, and Yasuhisa Mizutani
    • Journal Title

      Biochemistry

      Volume: 60 Issue: 41 Pages: 3050-3057

    • DOI

      10.1021/acs.biochem.1c00529

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Presentation] 時間分解共鳴ラマン分光法によるイオンポンプロドプシンの構造ダイナミクス観測2023

    • Author(s)
      水野 操
    • Organizer
      第23回日本蛋白質科学会年会
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] Observing of structural changes critical to the functioning of ion-pumping rhodopsins2023

    • Author(s)
      Misao Mizuno
    • Organizer
      9th International Discussion Meeting on Relaxations in Complex Systems (9IDMRCS)
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 時間分解アンチストークスラマン分光法によるタンパク質分子内振動エネルギー移動の観測2023

    • Author(s)
      水野 操
    • Organizer
      第23回日本光生物学協会年会
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] Unique vibrational characters and structures of the photoexcited retinal chromophore in ion-pumping rhodopsins2023

    • Author(s)
      Misao Mizuno
    • Organizer
      8th Asian Spectroscopy Conference (ASC2023)
    • Related Report
      2023 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Spatiotemporal mapping of vibrational energy flow in proteins2023

    • Author(s)
      Misao Mizuno
    • Organizer
      第61回日本生物物理学会年会
    • Related Report
      2023 Annual Research Report
    • Invited
  • [Presentation] 時間分解共鳴ラマン分光法で観るタンパク質ダイナミクス2023

    • Author(s)
      水野 操
    • Organizer
      レーザー学会学術講演会第43回年次大会
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] 無蛍光性色素タンパク質による分子ヒーターの開発2023

    • Author(s)
      徳 さくらこ、水野 操、今村 博臣、村越 秀治、水谷 泰久
    • Organizer
      日本化学会第103春季年会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ナトリウムイオン輸送タンパク質の多量体形成に依存した分子内水素結合変化2023

    • Author(s)
      中村 大輝、水野 操、大友 章裕、神取 秀樹、水谷 泰久
    • Organizer
      日本化学会第103春季年会
    • Related Report
      2022 Annual Research Report
  • [Presentation] シゾロドプシンに共通する内向きプロトン輸送に重要な構造変化の同定2022

    • Author(s)
      潤井 泰斗、林 航平、水野 操、井上 圭一、神取 秀樹、水谷 泰久
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Time-resolved resonance Raman observation of the photoexcited retinal chromophore in halorhodopsin2022

    • Author(s)
      Zixuan Li, Misao Mizuno, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ヘムタンパク質を用いた分子ヒーターの開発2022

    • Author(s)
      渡瀬 太郎、水野 操、石川 春人、水谷 泰久
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Annual Research Report
  • [Presentation] 祖先型グロビンフォールドタンパク質の構造ダイナミクスの解明2022

    • Author(s)
      入谷 悠、石川 春人、水野 操、水谷 泰久
    • Organizer
      第16回分子科学討論会
    • Related Report
      2022 Annual Research Report
  • [Presentation] Elucidation of intramolecular heat transfer mechanism for construction of highly effective photothermal protein heaters(高 効率光熱変換タンパク質ヒーター創出に向けた分子内熱伝導機構の解明)2022

    • Author(s)
      水野 操
    • Organizer
      日本生物物理学会第60回年会
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] Time-resolved anti-Stokes Raman Study on vibrational energy flow in proteins2022

    • Author(s)
      Misao Mizuno
    • Organizer
      Taiwan-Japan International Symposium on Raman Spectroscopy / Development of Advanced Raman Spectroscopy in Japan and Taiwan
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] Contact-Mediated Retinal-Opsin Coupling Enables Proton Pumping in Gloeobacter Rhodopsin2022

    • Author(s)
      Tomomi Shionoya, Misao Mizuno, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      19th International Conference on Retinal Proteins
    • Related Report
      2022 Annual Research Report
  • [Presentation] Identification of Structural Changes Essential to Inward Proton Transport Common to Schizorhodopsins2022

    • Author(s)
      Taito Urui, Kouhei Hayashi, Misao Mizuno, Keiichi Inoue, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      19th International Conference on Retinal Proteins
    • Related Report
      2022 Annual Research Report
  • [Presentation] Structural analysis on the M intermediates of inward proton-pumping xenorhodopsins2022

    • Author(s)
      Kouhei Hayashi, Taito Urui, Misao Mizuno, Hideki Kandori, Yuki Sudo, Yasuhisa Mizutani
    • Organizer
      19th International Conference on Retinal Proteins
    • Related Report
      2022 Annual Research Report
  • [Presentation] Time-resolved Resonance Raman Observation of Quaternary Structural Changes of Dimeric Hemoglobin2022

    • Author(s)
      Xiang Gao, Misao Mizuno, Haruto Ishikawa, Yasuhisa Mizutani
    • Organizer
      日本化学会第102春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Time-resolved resonance Raman observation of the chromophore structure in primary intermediates of microbial rhodopsins2022

    • Author(s)
      Zixuan Li, Misao Mizuno, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      日本化学会第102春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] 共鳴ラマン分光法による祖先型グロビンフォールドタンパク質のヘム-軸配位子構造の解明2022

    • Author(s)
      入谷 悠、石川 春人、水野 操、水谷 泰久
    • Organizer
      日本化学会第102春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] 内向きプロトンポンプシゾロドプシンにみられる複数のM中間体の発色団構造解析2022

    • Author(s)
      林 航平、水野 操、神取 秀樹、水谷 泰久
    • Organizer
      日本化学会第102春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Characterization of the chromophore structure in the photocycle of a new type of chloride ion-pumping rhodopsin2021

    • Author(s)
      Misao Mizuno, Naito Ishimoto, Sam-Yong Park, Yasuhisa Mizutani
    • Organizer
      Twentieth International Conference on Time-Resolved Vibrational Spectroscopy
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Interaction between retinal chromophore and opsin to enable proton transport in a light-driven proton pump GR2021

    • Author(s)
      Tomomi Shionoya, Misao Mizuno, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      Twentieth International Conference on Time-Resolved Vibrational Spectroscopy
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Resonance Raman Determination of Chromophore Structures of Heliorhodopsin Photointermediates2021

    • Author(s)
      Taito Urui, Misao Mizuno, Akihiro Otomo, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      Twentieth International Conference on Time-Resolved Vibrational Spectroscopy
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 新規光駆動塩化物イオンポンプの光反応中間体の発色団構造解析2021

    • Author(s)
      水野操、石本 直偉士、朴 三用、水谷 泰久
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Annual Research Report
  • [Presentation] レチナールアナログ置換によるヘリオロドプシン発色団の構造特異性の解明2021

    • Author(s)
      潤井 泰斗、水野 操、水谷 泰久
    • Organizer
      第15回分子科学討論会
    • Related Report
      2021 Annual Research Report
  • [Presentation] Role of atomic contacts in vibrational energy transfer in protein2021

    • Author(s)
      Misao Mizuno
    • Organizer
      Pacifichem2021
    • Related Report
      2021 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 光駆動プロトンポンプGRのプロトン輸送を誘起する発色団-オプシン相互作用2021

    • Author(s)
      塩谷 智巳、水野 操、神取 秀樹、水谷 泰久
    • Organizer
      日本化学会第101春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] ヘリオロドプシンの光サイクルにおけるレチナールシッフ塩基の水素結合強度の変遷2021

    • Author(s)
      潤井 泰斗、水野 操、神取 秀樹、水谷 泰久
    • Organizer
      日本化学会第101春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 紫外共鳴ラマン分光法によるプロトンポンプGRのプロトン輸送過程におけるタンパク質構造変化2020

    • Author(s)
      塩谷 智巳、水野 操、神取 秀樹、水谷 泰久
    • Organizer
      分子科学会オンライン討論会
    • Related Report
      2020 Annual Research Report
  • [Presentation] 新規光受容タンパク質ヘリオロドプシンが持つ光反応中間体の発色団構造2020

    • Author(s)
      潤井泰斗、水野 操、神取 秀樹、水谷 泰久
    • Organizer
      分子科学会オンライン討論会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Chromophore structure in a long-lived intermediate of heliorhodopsins: switching of a hydrogen bonding partner of protonated Schiff base2020

    • Author(s)
      Taito Urui, Akihiro Otomo, Misao Mizuno, Hideki Kandori, Yasuhisa Mizutani
    • Organizer
      Asian Spectroscopy Conference 2020
    • Related Report
      2020 Annual Research Report
  • [Remarks] 京都大学大学院理学研究科化学専攻 量子化学分科 水野グループ

    • URL

      https://sites.google.com/kyoto-u.ac.jp/kuchem-mizuno/

    • Related Report
      2023 Annual Research Report
  • [Remarks] 大阪大学大学院理学研究科化学専攻生物物理化学研究室

    • URL

      http://www.chem.sci.osaka-u.ac.jp/lab/mizutani/index-jp.html

    • Related Report
      2022 Annual Research Report 2021 Annual Research Report 2020 Annual Research Report

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Published: 2020-04-28   Modified: 2025-01-30  

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