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Structural elucidation of active transport by P-type ATPases

Research Project

Project/Area Number 16H02499
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionThe University of Tokyo

Principal Investigator

Toyoshima Chikashi  東京大学, 定量生命科学研究所, 教授 (70172210)

Co-Investigator(Kenkyū-buntansha) 椛島 佳樹  東京大学, 定量生命科学研究所, 助教 (00580573)
小川 治夫  東京大学, 定量生命科学研究所, 准教授 (40292726)
金井 隆太  東京大学, 定量生命科学研究所, 助教 (50598472)
Project Period (FY) 2016-04-01 – 2019-03-31
Project Status Completed (Fiscal Year 2018)
Budget Amount *help
¥43,030,000 (Direct Cost: ¥33,100,000、Indirect Cost: ¥9,930,000)
Fiscal Year 2018: ¥14,430,000 (Direct Cost: ¥11,100,000、Indirect Cost: ¥3,330,000)
Fiscal Year 2017: ¥13,520,000 (Direct Cost: ¥10,400,000、Indirect Cost: ¥3,120,000)
Fiscal Year 2016: ¥15,080,000 (Direct Cost: ¥11,600,000、Indirect Cost: ¥3,480,000)
Keywordsイオンポンプ / 膜蛋白質 / 結晶解析 / エネルギー変換 / 構造生物学 / 蛋白質 / 生物物理
Outline of Final Research Achievements

We have been aiming at complete understanding of the mechanism of active ion transport and eventually “why the structures of ion pumps have to be so” in particular with the Ca2+-pump for which we have determined atomic structures of 10 reaction intermediates. In this project, we succeeded in elucidating the crystal structures of the gating residue mutants and thereby why proton countertransport is necessary. We also succeeded in determining the crystal structure of the Ca2+ pump with bound ATP in the absence of Ca2+, thereby elucidating structural changes that ATP binding alone can cause. Furthermore, we succeeded in visualising lipid bilayers in the crystals of Ca2+-pump in four states and described detailed interactions with phospholipids and their roles in structural changes.

Academic Significance and Societal Importance of the Research Achievements

イオンポンプは生体の恒常性の維持に極めて重要な役割を持つ膜蛋白質であり、心臓病や癌、神経疾患の治療などの観点からも注目されている。Ca2+ポンプに関しては11の中間状態の構造決定に成功しているのみならず、本研究によって構造変化におけるプロトンの役割や脂質二重膜との相互作用の詳細の解明にまで成功した唯一の膜蛋白質である。原子構造に基づく蛋白質の作動機構の理解がここまで進んだ蛋白質は他に無く、学術的価値は極めて高い。

Report

(4 results)
  • 2018 Annual Research Report   Final Research Report ( PDF )
  • 2017 Annual Research Report
  • 2016 Annual Research Report
  • Research Products

    (25 results)

All 2019 2018 2017 2016 Other

All Int'l Joint Research (1 results) Journal Article (7 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 7 results) Presentation (16 results) (of which Int'l Joint Research: 9 results,  Invited: 16 results) Remarks (1 results)

  • [Int'l Joint Research] Aarhus University(デンマーク)

    • Related Report
      2016 Annual Research Report
  • [Journal Article] Mechanism of the E2 to E1 transition in Ca2+ pump revealed by crystal structures of gating residue mutants.2018

    • Author(s)
      Naoki Tsunekawa, Haruo Ogawa, Junko Tsueda, Toshihiko Akiba, and Chikashi Toyoshima
    • Journal Title

      Proceedings of the National Academy of Sciences

      Volume: 115 Issue: 50 Pages: 12722-12727

    • DOI

      10.1073/pnas.1815472115

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] X線コントラスト変調法によって明らかになった膜蛋白質と燐脂質の相互作用のダイナミクス2018

    • Author(s)
      豊島 近、乗松 良行
    • Journal Title

      放射光

      Volume: 31 Pages: 212-218

    • NAID

      40021599683

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Suppressor mutation analysis combined with 3D modeling explains cohesin’s capacity to hold and release DNA2018

    • Author(s)
      Xu Xingya、Kanai Ryuta、Nakazawa Norihiko、Wang Li、Toyoshima Chikashi、Yanagida Mitsuhiro
    • Journal Title

      Proceedings of the National Academy of Sciences

      Volume: 115 Issue: 21

    • DOI

      10.1073/pnas.1803564115

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Protein-lipid interplay revealed with crystals of a Calcium pump2017

    • Author(s)
      Norimatsu, Y and Toyoshima, C
    • Journal Title

      Nature

      Volume: 545 Issue: 7653 Pages: 193-198

    • DOI

      10.1038/nature22357

    • Description
      掲載確定
    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Distinct pH dependencies of Na+/K+selectivity at the two faces of Na,K-ATPase2017

    • Author(s)
      Cornelius Flemming、Tsunekawa Naoki、Toyoshima Chikashi
    • Journal Title

      Journal of Biological Chemistry

      Volume: 293 Issue: 6 Pages: 2195-2205

    • DOI

      10.1074/jbc.ra117.000700

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] The road to understanding an ion pump2016

    • Author(s)
      Toyoshima, C
    • Journal Title

      PHYSICA SCRIPTA

      Volume: 91 Issue: 4 Pages: 042501-042501

    • DOI

      10.1088/0031-8949/91/4/042501

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mn^<2+> transport by Ca^<2+>-ATPase of sarcoplasmic reticulum2016

    • Author(s)
      Yonekura, SI and Toyoshima, C
    • Journal Title

      FEBS Letters

      Volume: 590 Issue: 14 Pages: 2086-2095

    • DOI

      10.1002/1873-3468.12244

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed
  • [Presentation] P 型 ATPase によるイオン輸送とその制御機構2019

    • Author(s)
      豊島 近
    • Organizer
      日本薬学会 第139年会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Role of phospholipids in ion pumping2018

    • Author(s)
      豊島 近
    • Organizer
      5th ShanghaiTech-SIAIS BioForum
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 原子構造に基づく筋小胞体カルシウムポンプの制御機構2018

    • Author(s)
      豊島 近
    • Organizer
      日本筋学会第4会学術集会
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] カルシウムポンプの結晶構造解析の現状2018

    • Author(s)
      豊島 近
    • Organizer
      第2回SPring-8における蛋白質構造生物学研究の現状と将来
    • Related Report
      2018 Annual Research Report
    • Invited
  • [Presentation] Structural Biology of the Calcium Pump2018

    • Author(s)
      豊島 近
    • Organizer
      第18回国際薬理学・臨床薬理学会議
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structural Biology of Ion Pumps2018

    • Author(s)
      豊島 近
    • Organizer
      Post Symposium
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structural Biology of Ion Pumps2018

    • Author(s)
      豊島 近
    • Organizer
      The 2nd International Symposium on Chemical Communication
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] イオンポンプの構造生物学:膜の可視化から量子化学計算まで2018

    • Author(s)
      豊島 近
    • Organizer
      生理研プロジェクト「機能タンパク質の構造と機能のダイナミクスと、それに基づく細胞・生体シス テム 作動機構の研究拠点の形成」平成29年度成果報告会
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] イオンポンプの構造的理解の長い道2017

    • Author(s)
      豊島 近
    • Organizer
      第35回先端医療センター Monthly Lecture
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] Structural Basis of Ion Pumping by Ca2+-ATPase2017

    • Author(s)
      豊島 近
    • Organizer
      第20回カルシウム結合蛋白質とカルシウム機構の生理と病態に関する国際シンポジウム(CaBP20)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Crystal structure analysis of Ca2+- and Na+,K+-ATPases” The 15th International Conference on Na,K-ATPase and Related Transport ATPases2017

    • Author(s)
      豊島 近
    • Organizer
      The 15th International Conference on Na,K-ATPase and Related Transport ATPases
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structural biology of Na+,K+-ATPase: towards understanding of mutations in ATP1A32017

    • Author(s)
      豊島 近
    • Organizer
      第6回ATP1A3遺伝子関連疾患国際シンポジウム
    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
    • Invited
  • [Presentation] Protein-lipid interplay revealed by X-ray solvent contrast modulation with calcium pump crystals2017

    • Author(s)
      豊島 近
    • Organizer
      19th IUPAB and 11th EBSA congress
    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] カルシウムポンプの構造生物学 - 燐脂質との相互作用2017

    • Author(s)
      豊島 近
    • Organizer
      第2回生物構造学研究会
    • Related Report
      2017 Annual Research Report 2016 Annual Research Report
    • Invited
  • [Presentation] Protein-Lipid Interplay as Revealed by X-ray Solvent Contrast Modulation with the crystals of Ca2+-ATPases in four different States2017

    • Author(s)
      豊島 近
    • Organizer
      IGER International Symposium on Physics of Life
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Crystal structure analysis of Ca2+- and Na+,K+-ATPases2017

    • Author(s)
      豊島 近
    • Organizer
      The 15th International Conference on Na,K-ATPase and Related Transport ATPases
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Remarks] 豊島研究室ホームページ

    • URL

      http://www.iam.u-tokyo.ac.jp/StrBiol/index.html

    • Related Report
      2018 Annual Research Report 2017 Annual Research Report 2016 Annual Research Report

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Published: 2016-04-21   Modified: 2020-03-30  

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