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Structural study on the function of chloride ion in photosystem II

Research Project

Project/Area Number 18K06158
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 43040:Biophysics-related
Research InstitutionJichi Medical University (2020)
Okayama University (2018-2019)

Principal Investigator

Umena Yasufumi  自治医科大学, 医学部, ポスト・ドクター (10468267)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
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: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2018: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywords光合成 / 結晶構造解析 / 分子アニオン / 塩素イオン / 水分解反応 / 結晶構造 / プロトン排出機構 / 蛋白質結晶構造解析 / 水分解反応の阻害因子 / 光合成蛋白質 / 蛋白質結晶 / X線結晶構造解析 / 反応阻害物質
Outline of Final Research Achievements

In order to elucidate the role of chloride ion, which is an essential cofactor for water splitting in photosystem II (PSII) in photosynthesis reaction, we studied the inhibition mechanism from the crystal structure of PSII bound with molecular anions, which reduced PSII activity and to understand the original role of chloride ion from structural chemistry.
This study succeeded in analyzing PSII crystals substituted with molecular anions azide, nitrate, and nitrite ions at 2-2.1 angstrom resolution. The inhibition mechanism was clarified from the common structural changes associated with these substitutions compared with the original structure. We concluded that the role of the chlorine ion in PSII is for supporting the proton transfer mechanism and for sustaining the structure of the active center of the Mn-cluster.

Academic Significance and Societal Importance of the Research Achievements

PSIIの水分解反応は金属触媒のMnクラスターを中心に議論がされているが、補欠因子としての塩素イオンの構造化学的な役割については、はっきりしていなかった。本研究により、PSIIにおける水分解反応をより包括的に議論できる構造情報を示すことができた。この知見は、Mnクラスターを模倣したMn触媒の周辺構造が重要性を提示することで、新たな人工光合成触媒への設計指針を提供できたものと思われる。

Report

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

    (14 results)

All 2021 2020 2019 2018

All Journal Article (9 results) (of which Int'l Joint Research: 6 results,  Peer Reviewed: 8 results,  Open Access: 4 results) Presentation (5 results) (of which Int'l Joint Research: 2 results,  Invited: 3 results)

  • [Journal Article] Capturing structural changes of the S1 to S2 transition of photosystem II using time-resolved serial femtosecond crystallography2021

    • Author(s)
      H Li, Y Nakajima, T Nomura, M Sugahara, S Yonekura, SK Chan, T Nakane, T Yamane, Y Umena, M Suzuki, T Masuda, T Motomura, H Naitow, Y Matsuura, T Kimura, K Tono, S Owada, Y Joti, R Tanaka, E Nango, F Akita, M Kubo, S Iwata, JR Shen and M Suga
    • Journal Title

      IUCrJ

      Volume: 8 Issue: 3 Pages: 431-443

    • DOI

      10.1107/s2052252521002177

    • NAID

      120007037379

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Time-Resolved X-ray Crystallography Using Synchrotron Radiation2021

    • Author(s)
      SATO-TOMITA Ayana、UMENA Yasufumi、ICHIYANAGI Kouhei、FUKAYA Ryo、HIKTA Masahide、MATSUGAKI Naohiro、MUTAI Toshiki
    • Journal Title

      Nihon Kessho Gakkaishi

      Volume: 63 Pages: 24-30

    • NAID

      130007994790

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Role of the Propionic Acid Side-Chain of C-Phycocyanin Chromophores in the Excited States for the Photosynthesis Process2020

    • Author(s)
      K.Mishima, M.Shoji, Y.Umena, M.Boero, Y.Shigeta
    • Journal Title

      Bulletin of the Chemical Society of Japan

      Volume: 93(12) Issue: 12 Pages: 1509-1519

    • DOI

      10.1246/bcsj.20200187

    • NAID

      130007955895

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Formation of the High-Spin S2 State Related to the Extrinsic Proteins in the Oxygen Evolving Complex of Photosystem II2020

    • Author(s)
      Taguchi Shota、Shen Liangliang、Han Guangye、Umena Yasufumi、Shen Jian-Ren、Noguchi Takumi、Mino Hiroyuki
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 11 Issue: 20 Pages: 8908-8913

    • DOI

      10.1021/acs.jpclett.0c02411

    • NAID

      120006890087

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] X-ray fluorescence holography for soft matter2019

    • Author(s)
      Ang Artoni Kevin Roquero、Sato-Tomita Ayana、Shibayama Naoya、Umena Yasufumi、Happo Naohisa、Marumi Riho、Kimura Koji、Matsushita Tomohiro、AKAGI Kazuto、Sasaki Takahiko、Sasaki Yuji C.、Hayashi Kouichi
    • Journal Title

      Japanese Journal of Applied Physics

      Volume: 59 Issue: 1 Pages: 010505-010505

    • DOI

      10.7567/1347-4065/ab5d55

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] An oxyl/oxo mechanism for oxygen-oxygen coupling in PSII revealed by an x-ray free-electron laser2019

    • Author(s)
      Suga M、Akita F、Yamashita K、Nakajima Y、Ueno G、Li H、Yamane T、Hirata K、Umena Y、Yonekura S、Yu L-J、Murakami H、Nomura T、Kimura T、Kubo M、Baba S、Kumasaka T、Tono K、Yabashi M、Isobe H、Yamaguchi K、Yamamoto M、Ago H、Shen J-R
    • Journal Title

      Science

      Volume: 366 Issue: 6463 Pages: 334-338

    • DOI

      10.1126/science.aax6998

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] A versatile experimental system for tracking ultrafast chemical reactions with X-ray free-electron lasers2019

    • Author(s)
      Katayama Tetsuo、Nozawa Shunsuke、Umena Yasufumi、Lee SungHee、Togashi Tadashi、Owada Shigeki、Yabashi Makina
    • Journal Title

      Structural Dynamics

      Volume: 6 Issue: 5 Pages: 054302-054302

    • DOI

      10.1063/1.5111795

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] An alternative plant-like cyanobacterial ferredoxin with unprecedented structural and functional properties2019

    • Author(s)
      Motomura Taiki、Zuccarello Lidia、S?tif Pierre、Boussac Alain、Umena Yasufumi、Lemaire David、Tripathy Jatindra N.、Sugiura Miwa、Hienerwadel Rainer、Shen Jian-Ren、Berthomieu Catherine
    • Journal Title

      Biochimica et Biophysica Acta (BBA) - Bioenergetics

      Volume: 1860 Issue: 11 Pages: 148084-148084

    • DOI

      10.1016/j.bbabio.2019.148084

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] β-Carotene Probes the Energy Transfer Pathway in the Photosystem II Core Complex2019

    • Author(s)
      Yoneda Yusuke、Nagasawa Yutaka、Umena Yasufumi、Miyasaka Hiroshi
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 10 Issue: 13 Pages: 3710-3714

    • DOI

      10.1021/acs.jpclett.9b01072

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Presentation] 光合成で働く光化学系II複合体の結晶構造解析に基づく機能解明2019

    • Author(s)
      梅名泰史
    • Organizer
      2019年度日本生化学会九州支部例会
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] Crystallographic study on estimation of the valence of each of the four Mn atoms in Photosystem II using anomalous diffraction techniques2019

    • Author(s)
      Yasufumi Umena, Keisuke Kawakami, Nobuo Kamiya, Yoshiaki Kawano, Keitaro Yamashita, Hideo Ago, Masaki Yamamoto, Jian-Ren Shen
    • Organizer
      69th American Crystallography Association Annual meeting
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Study of functional structures in photosystem II revealed by pH dependent structural changes2019

    • Author(s)
      Yasufumi Umena, Mayuho Adachi, Jian-Ren Shen
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] 補欠因子の塩素イオンを分子陰イオンへ置換した光化学系IIの結晶構造解析によるプロトンの排出阻害機構の構造化学的研究2018

    • Author(s)
      梅名泰史,田丸翔也,沈建仁
    • Organizer
      第18回 日本蛋白質科学会年会
    • Related Report
      2018 Research-status Report
    • Invited
  • [Presentation] Proton transfer inhibition by molecular anion substitutions in Photosystem II2018

    • Author(s)
      Yasufumi Umena, Shouya Tamaru, Jian-Ren Shen
    • Organizer
      International Symposium on Photosynthesis and Chloroplast Biogenesis 2018 (ISPCB2018)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research

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Published: 2018-04-23   Modified: 2022-01-27  

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