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Fine structures of reaction inter-mediates of bovine cytochrome c oxidase

Research Project

Project/Area Number 18K06092
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 43020:Structural biochemistry-related
Research InstitutionUniversity of Hyogo

Principal Investigator

Tsukihara Tomitake  兵庫県立大学, 理学研究科, 特任教授 (00032277)

Co-Investigator(Kenkyū-buntansha) 吉川 信也  兵庫県立大学, 生命理学研究科, 特任教授(名誉教授) (40068119)
島田 敦広  岐阜大学, 応用生物科学部, 准教授 (80723874)
Project Period (FY) 2018-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2020: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2019: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2018: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywordsチトクロムc酸化酵素 / 膜蛋白質 / 呼吸酵素 / X線結晶構造解析 / 立体構造 / プロトン能動輸送 / 酸素還元 / 生体超分子 / 膜タンパク質 / 生体エネルギー変換 / 構造と機能 / タンパク質複合体 / プロトンポンプ / チトクロム酸化酵素
Outline of Final Research Achievements

Cytochrome c oxidase (CcO) reduces molecular oxygen (O2) to water, coupled with a proton pump. Electrons for the O2 reduction are transferred from cytochrome c in the positive side phase of the inner mitochondrial membrane to the O2 reduction site. The O2 reduction is performed via a catalytic cycle consisting of six stages, R, A, P, F, O and E. Four electrons are transferred from cytochrome c to CcO to reduce an O2 molecule. Each electron transfer to the O2 reduction site coupled with one proton active transfer across the mitochondrial inner-membrane. We have determined bovine CcO structures in various states to elucidate the coupling mechanism of the O2 reduction and proton pumping.
In the present study structure of R-state was re-refined to improve quality of its structure, and crystal structures of A-, P-, F-, O- and E-states of CcO were successfully determined at high resolution. These structures support a proton pumping mechanism via H-pathway that has been proposed by us.

Academic Significance and Societal Importance of the Research Achievements

チトクロムc酸化酵素(CcO)は呼吸鎖末端酵素で、酸素の還元とそれに同期したプロトンの能動輸送によってエネルギーを生産している。我々は長年酸素還元・プロトン能動輸送の仕組みの解明のためにウシCcOの結晶構造解析を行ってきた。
種々の反応中間体類似体等の構造解析を行い、酸素還元・プロトン能動輸送機構を提案している。この提案に対して、細菌CcOの変異体の機能解析等による多くの反論が出た。それらの反論を逐次新たな構造解析によって克服して、哺乳類に関する酸素還元・プロトン能動輸送機構としては我々の提案が認知されるようになってきた。この度の反応中間体の構造も我々の提案を一層強く支持する結果である。

Report

(5 results)
  • 2021 Annual Research Report   Final Research Report ( PDF )
  • 2020 Research-status Report
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (18 results)

All 2021 2020 2019 2018

All Journal Article (4 results) (of which Peer Reviewed: 4 results,  Open Access: 3 results) Presentation (14 results) (of which Invited: 3 results)

  • [Journal Article] Critical roles of the CuB site in efficient proton pumping as revealed by crystal structures of mammalian cytochrome c oxidase catalytic intermediates2021

    • Author(s)
      Atsuhiro Shimada, Fumiyoshi Hara, Kyoko Shinzawa-Itoh, Nobuko Kanehisa, Eiki Yamashita, Kazumasa Muramoto2, Tomitake Tsukihara, and Shinya Yoshikawa
    • Journal Title

      Journal of Biological Chemistry

      Volume: 297 Issue: 3 Pages: 100967-100967

    • DOI

      10.1016/j.jbc.2021.100967

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] The 1.3-angstrom resolution structure of bovine cytochrome c oxidase suggests a dimerization mechanism2020

    • Author(s)
      K. Shinzawa-Itoh, M. Hatanaka, K. Fujita, N. Yano, Y. Ogasawara, J. Iwata, E. Yamashita, T. Tsukihara, S. Yoshikawa, K. Muramoto
    • Journal Title

      BBA Advances

      Volume: 1 Pages: 100009-100009

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] X-ray structures of catalytic intermediates of cytochrome c oxidase provide insights into its O2 activation and unidirectional proton-pump mechanisms2020

    • Author(s)
      A. Shimada, Y. Etoh, R. Kitoh-Fujisawa, A. Sasaki, K. Shinzawa-Itoh, T. Hiromoto, E. Yamashita, K. Muramoto, T. Tsukihara, S. Yoshikawa
    • Journal Title

      J. Biol. Chem.

      Volume: 295 Issue: 17 Pages: 5818-5833

    • DOI

      10.1074/jbc.ra119.009596

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Low-dose X-ray structure analysis of cytochrome c oxidase utilizing high-energy X-rays.2019

    • Author(s)
      G. Ueno, A. Shimada, E. Yamashita, K. Hasegawa, T. Kumasaka, K. Shinzawa-Itoh, S. Yoshikawa, T. Tsukihara, M. Yamamoto.
    • Journal Title

      J Synchrotron Radiat.

      Volume: 26 Issue: 4 Pages: 912-921

    • DOI

      10.1107/s1600577519006805

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] 私の蛋白質結晶学-チトクロムcからチトクロムc酸化酵素2021

    • Author(s)
      月原冨武
    • Organizer
      日本結晶学会年会
    • Related Report
      2021 Annual Research Report
    • Invited
  • [Presentation] O2-activation and unidirectional proton-pump mechanisms of cytochrome c oxidase elucidated by X-ray structures of its catalytic intermediates2020

    • Author(s)
      A. Shimada, Y. Eto, K. Shinzawa-Itoh, E. Yamashita, K. Muramoto, T. Tsukihara, S. Yoshikawa
    • Organizer
      第20回日本蛋白質科学会年会
    • Related Report
      2020 Research-status Report
  • [Presentation] 構造から見たチトクロム酸化酵素のH-経路を介したプロトン能動輸送機構の普遍性2020

    • Author(s)
      島田敦広、月原冨武、吉川信也
    • Organizer
      日本結晶学会年会
    • Related Report
      2020 Research-status Report
  • [Presentation] ウシ心筋シトクロム酸化酵素の1.3オングストローム分解能構造が示唆する二量体化機構2020

    • Author(s)
      伊藤・新澤恭子、畑中美紀、藤田和也、矢野直峰、小笠原由美、岩田淳、山下栄樹、月原冨武、吉川信也、村本和優
    • Organizer
      日本生体エネルギー研究会
    • Related Report
      2020 Research-status Report
  • [Presentation] Monomeric structure of an active form of respiratory oxygen reductase from bovine mitochondria2019

    • Author(s)
      K. Shinzawa-Itoh, T. Sugimura, T. Misaki, Y. Tadehara, S. Yamamoto, M. Hanada, N. Yano, T. Nakagawa, S. Uene, T. Yamada, H. Aoyama, E. Yamashita, T. Tsukihara, S. Yoshikawa, K. Muramoto
    • Organizer
      第57回日本生物物理学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Intermediate structure of cytochrome c oxidase provide insights into the mechanism of unidirectional proton pump coupled with O2 reduction.2019

    • Author(s)
      A. Shimada, K. Muramoto, K. Shinzawa-Itoh, T. Tsukihara, S. Yoshikawa.
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Structure determination of reduced cytochrome c oxidase using non-frozen crystal.2019

    • Author(s)
      T. Mizutani, A. Miyamoto, K. Ashida, K. Shinzawa-Itoh, A. Shimada, T. Tsukihara, S. Yoshikawa.
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Influence of differences in X-ray dose on crystal structure of cytochrome c oxidase.2019

    • Author(s)
      G. Syo, A. Miyamoto, K. Ashida, K. Shinzawa-Itoh, A. Shimada, T. Tsukihara, S. Yoshikawa.
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] チトクロム酸化酵素の構造・機能研究から見た結晶学の役割2019

    • Author(s)
      月原冨武
    • Organizer
      日本結晶学会年会
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] Reaction mechanism of cytochrome c oxidase elucidated by high-resolution crystal structural analyses2018

    • Author(s)
      Tomitake Tsukihara, Atsuhiro Shimada, Shinya Yoshikawa
    • Organizer
      第18回日本蛋白質科学会年会
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] A nanosecond time-resolved XFEL structure analysis reveals the structural changes associated with CO release from Cytochrome c Oxidase2018

    • Author(s)
      Atsuhiro Shimada, Minoru Kubo, Seiki Baba, Hideo Ago, Tomitake Tsukihara, Shinya Yoshikawa
    • Organizer
      第18回日本蛋白質科学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] Structure changes induced by O2-binding tightly regulate the proton-pumping of cytochrome c oxidase2018

    • Author(s)
      Atsuhiro Shimada, Minoru Kubo, Seiki Baba, Hideo Ago, Tomitake Tsukihara, Shinya Yoshikawa
    • Organizer
      第56回日本生物物理学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] A unique respiratory adaptation in Drosophila independent of supercomplex formation2018

    • Author(s)
      Satoru Shimada, Marika Oosaki, Ryoko Takahashi, Shigefumi Uene, Sachiko Yanagisawa, Tomitake Tsukihara, Kyoko Shinzawa-Itoh
    • Organizer
      第56回日本生物物理学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] 構造解析における動的揺らぎと構造多型の区別-CO結合還元型チトクロム酸化酵素のX線結晶構造解析の場合2018

    • Author(s)
      島田敦広、矢野直峰、山下栄樹、廣本武史、伊藤-新澤恭子、吉川信也、月原冨武
    • Organizer
      日本結晶学会年会
    • Related Report
      2018 Research-status Report

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Published: 2018-04-23   Modified: 2023-01-30  

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