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Structural analysis of cytochrome bd oxidase complex with substrate

Research Project

Project/Area Number 15K18488
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Structural biochemistry
Research InstitutionOsaka University

Principal Investigator

Nakaniwa Tetsuko  大阪大学, たんぱく質研究所, 特別研究員(RPD) (80569070)

Research Collaborator KURISU GENJI  大阪大学, 蛋白質研究所, 教授 (90294131)
TANAKA HIDEAKI  大阪大学, 蛋白質研究所, 准教授 (40346169)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2017: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2016: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2015: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Keywords呼吸鎖電子伝達系 / シトクロム末端酸化酵素 / 構造生物学 / 結晶構造解析 / 呼吸鎖複合体 / 膜タンパク質複合体
Outline of Final Research Achievements

The cytochrome bd oxidases (Cytbd) are terminal oxidases that reduce molecular oxygen to water, avoiding the production of reactive oxygen species. In addition to their contribution to the proton motive force, they mediate viability under oxygen-related stress conditions. Here I aimed at the decision of the Cytbd complex structure with substrate. In this study, I made cocrystal of high quality and carried out the X-ray measurement that held the damage of the crystal. As a result, I succeeded in collecting the data of the highest resolution of 4.8A. It was determined in the initial phase by molecular replacement and then carried out the structure construction and refinement. However, it was not possible to obtain a novel structure knowledge.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • 2015 Research-status Report
  • Research Products

    (12 results)

All 2017 2016 2015

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

  • [Journal Article] A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity2017

    • Author(s)
      Haruna Takao, Kei Hirabayashi, Yuki Nishigaya, Haruna Kouriki, Tetsuko Nakaniwa, Yoshinori Hagiwara, Jiro Harada, Hideaki Sato, Toshimasa Yamazaki, Yoichi Sakakibara, Masahito Suiko, Yujiro Asada, Yasuhiro Takahashi, Ken Yamamoto, Keiichi Fukuyama, Masakazu Sugishima, and Kei Wada
    • Journal Title

      Nat. Commun.

      Volume: 8 Issue: 1 Pages: 1-10

    • DOI

      10.1038/ncomms14397

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Identification of Protein Kinase CK2 Inhibitors using Solvent Dipole Ordering Virtual Screening.2015

    • Author(s)
      Isao Nakanishi, Katsumi Murata, Naoya Nagata, Masakuni Kurono, Takayoshi Kinoshita, Misato Yasue, Takako Miyazaki, Yoshinori Takei, Shinya Nakamura, Atsushi Sakurai, Nobuko Iwamoto, Keiji Nishiwaki, Tetsuko Nakaniwa, Yusuke Sekiguchi, Akira Hirasawa, Gozoh Tsujimoto, and Kazuo Kitaura.
    • Journal Title

      Eur. J. Med. Chem.

      Volume: 96 Pages: 396-404

    • DOI

      10.1016/j.ejmech.2015.04.032

    • Related Report
      2015 Research-status Report
    • Peer Reviewed
  • [Presentation] CK 2a1-hemateinの結合を変化させる間接的要因2017

    • Author(s)
      露口 正人、平澤 明、仲庭 哲津子、櫻井 淳史、仲西 功、木下 誉富
    • Organizer
      2017年度 日本薬学会年会
    • Place of Presentation
      仙台国際センター(宮城県仙台市)
    • Year and Date
      2017-03-24
    • Related Report
      2016 Research-status Report
  • [Presentation] タイプ1型光合成反応中心のX線結晶構造解析2017

    • Author(s)
      伏見こころ、仲庭哲津子、武藤梨沙、安田亜矢、安藤俊介、田中秀明、大岡宏造、栗栖源嗣
    • Organizer
      光合成細菌セミナー
    • Related Report
      2017 Annual Research Report
  • [Presentation] 深所型緑藻における新規光合成アンテナの再構成法の確立2017

    • Author(s)
      仲庭哲津子、Ratana Charoenwattanasatien、乗岡尚子、東田怜、山野奈美、狩野竜一、藤原健太郎、大滝宏代、田中秀明、藤井律子、栗栖源嗣
    • Organizer
      光合成細菌セミナー
    • Related Report
      2017 Annual Research Report
  • [Presentation] CK2a1-hemateinの結合を変化させる間接的要因2017

    • Author(s)
      露口正人、平澤明、仲庭哲津子、櫻井淳史、仲西功、木下誉富
    • Organizer
      第17回日本蛋白質科学会年会
    • Related Report
      2017 Annual Research Report
  • [Presentation] CK2α2の高分解能X線結晶構造解析2016

    • Author(s)
      露口 正人、仲庭 哲津子、仲西 功、木下 誉富
    • Organizer
      日本結晶学会平成28年度年会
    • Place of Presentation
      茨城県県民文化センター(茨城県水戸市)
    • Year and Date
      2016-11-17
    • Related Report
      2016 Research-status Report
  • [Presentation] Crystal structure of CK2α2 in the new crystal form.2016

    • Author(s)
      Masato Tsuyuguchi, Tetsuko Nakaniwa, Isao Nakanishi, Takayoshi Kinoshita
    • Organizer
      8th International Conference on Protein Kinase CK2
    • Place of Presentation
      Germany(Homburg)
    • Year and Date
      2016-09-06
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] His160のコンホメーション変化とhemateinによるATP非拮抗型CK2α1阻害の関係2016

    • Author(s)
      露口 正人、平澤 明、仲庭 哲津子、櫻井 淳史、仲西 功、木下 誉富
    • Organizer
      第16回日本蛋白質科学会年会
    • Place of Presentation
      福岡国際会議場(福岡県福岡市)
    • Year and Date
      2016-06-07
    • Related Report
      2016 Research-status Report
  • [Presentation] CK2 サブタイプ間で異なる四環性化合物の阻害作用機序の解明2015

    • Author(s)
      露口 正人、平澤 明、仲庭 哲津子、櫻井 淳史、仲西 功、木下 誉富
    • Organizer
      日本結晶学会平成27年度年会
    • Place of Presentation
      大阪府立大学(大阪府堺市)
    • Year and Date
      2015-10-17
    • Related Report
      2015 Research-status Report
  • [Presentation] tructural basis for producing CK2α1- specific inhibitors: Crystal structures of hematein with CK2α 1 and CK2α22015

    • Author(s)
      露口 正人、平澤 明、仲庭 哲津子、櫻井 淳史、仲西 功、木下 誉富
    • Organizer
      日本薬学会構造活性相関シンポジウム
    • Place of Presentation
      新潟日報メディアシップ(新潟県新潟市)
    • Year and Date
      2015-09-27
    • Related Report
      2015 Research-status Report
  • [Presentation] CK2サブタイプ間で異なるhemateinの阻害作用メカニズムの解明2015

    • Author(s)
      露口 正人、平澤 明、仲庭 哲津子、櫻井 淳史、仲西 功、木下 誉富
    • Organizer
      第15回日本タンパク質科学会年会
    • Place of Presentation
      徳島市あわぎんホール(徳島県徳島市)
    • Year and Date
      2015-06-24
    • Related Report
      2015 Research-status Report

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Published: 2015-04-16   Modified: 2019-03-29  

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