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Development of a selective BRD4 inhibitor by neutron protein crystallographic analysis

Research Project

Project/Area Number 19K07012
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
Research InstitutionUniversity of Toyama

Principal Investigator

Yokoyama Takeshi  富山大学, 学術研究部薬学・和漢系, 助教 (50524162)

Project Period (FY) 2019-04-01 – 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 2021: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2020: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2019: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords中性子結晶構造解析 / BRD4 / 等温滴定カロリメトリー / イソリキリチゲニン / エンタルピー / 水素結合 / 水分子クラスター / ブロモドメイン / 阻害剤 / brd4 / X線結晶構造解析 / 等温滴定カロリメトリ
Outline of Research at the Start

Bromodomain-containing protein 4 (BRD4)は抗がん剤の標的タンパク質として期待されている。BRD4阻害剤の一つであるJQ1は、BRD4以外のタンパク質も阻害するため、副作用が懸念されている。副作用の少ない、つまり標的タンパク質を選択的に阻害する化合物の開発において、体系的な手法は確立されていない。本研究では中性子結晶解析を利用してBRD4選択的阻害剤を開発する。

Outline of Final Research Achievements

Neutron crystal structure of the BRD4-inhibitor complex was successfully determined, and the positions and occupancies of the hydrogen and deuterium atoms in the protein were precisely determined. This analysis revealed the whole picture of the hydrogen bond network of the water cluster located at the substrate binding site. In addition, the binding of isoliquiritigenin to BRD4 was shown to be enthalpy-driven by isothermal titration calorimetry, suggesting that isoliquiritigenin have an advantage in selective binding to BRD4. Previous X-ray crystallography showed that the binding of isoliquiritigenin to BRD4 induced an arrangement of the water clusters. Collectively, the favorable enthalpy change in the binding of isoliquiritigenin to BRD4 could be obtained by the rearrangement of the hydrogen bond network of the water cluster.

Academic Significance and Societal Importance of the Research Achievements

BRD4を阻害する化合物はさまざまながんに対する治療薬になると期待されている。しかし、ブロモドメインをもつタンパク質は多くあるため、副作用の観点から特異的にBRD4に結合し、その機能を阻害する薬剤の開発が望まれている。本研究の成果は、選択的結合に適した官能基と結合様式を同定したことであり、選択的BRD4阻害剤の開発を進めるうえで重要な知見を得ることができた。

Report

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

    (15 results)

All 2021 2020 2019

All Journal Article (8 results) (of which Peer Reviewed: 8 results,  Open Access: 1 results) Presentation (7 results) (of which Int'l Joint Research: 2 results)

  • [Journal Article] A chalcone derivative suppresses TSLP induction in mice and human keratinocytes through binding to BET family proteins2021

    • Author(s)
      Segawa Ryosuke、Takeda Hiroyuki、Yokoyama Takeshi、Ishida Momoha、Miyata Chihiro、Saito Taiji、Ishihara Ryosuke、Nakagita Tomoya、Sasano Yusuke、Kanoh Naoki、Iwabuchi Yoshiharu、Mizuguchi Mineyuki、Hiratsuka Masahiro、Hirasawa Noriyasu
    • Journal Title

      Biochemical Pharmacology

      Volume: 194 Pages: 114819-114819

    • DOI

      10.1016/j.bcp.2021.114819

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Repositioning of the Anthelmintic Drugs Bithionol and Triclabendazole as Transthyretin Amyloidogenesis Inhibitors2021

    • Author(s)
      Yokoyama Takeshi、Kashihara Mirai、Mizuguchi Mineyuki
    • Journal Title

      Journal of Medicinal Chemistry

      Volume: 64 Issue: 19 Pages: 14344-14357

    • DOI

      10.1021/acs.jmedchem.1c00823

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Inhibitory activities of anthraquinone and xanthone derivatives against transthyretin amyloidogenesis2021

    • Author(s)
      Kitakami Ryota、Inui Kishin、Nakagawa Yusuke、Sawai Yurika、Katayama Wakana、Yokoyama Takeshi、Okada Takuya、Kanamitsu Kayoko、Nakagawa Shinsaku、Toyooka Naoki、Mizuguchi Mineyuki
    • Journal Title

      Bioorganic & Medicinal Chemistry

      Volume: 44 Pages: 116292-116292

    • DOI

      10.1016/j.bmc.2021.116292

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal structure of death-associated protein kinase 1 in complex with the dietary compound resveratrol2021

    • Author(s)
      Yokoyama Takeshi、Suzuki Ryoya、Mizuguchi Mineyuki
    • Journal Title

      IUCrJ

      Volume: 8 Issue: 1 Pages: 131-138

    • DOI

      10.1107/s2052252520015614

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Transthyretin Amyloidogenesis Inhibitors: From Discovery to Current Developments2020

    • Author(s)
      Yokoyama Takeshi、Mizuguchi Mineyuki
    • Journal Title

      Journal of Medicinal Chemistry

      Volume: 63 Issue: 23 Pages: 14228-14242

    • DOI

      10.1021/acs.jmedchem.0c00934

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Neutron diffraction experiment with the Y116S variant of transthyretin using iBIX at J-PARC: application of a new integration method2020

    • Author(s)
      Kusaka Katsuhiro、Yokoyama Takeshi、Yamada Taro、Yano Naomine、Tanaka Ichiro、Mizuguchi Mineyuki
    • Journal Title

      Acta Crystallographica Section D Structural Biology

      Volume: 76 Issue: 11 Pages: 1050-1056

    • DOI

      10.1107/s2059798320012498

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Structural and thermodynamic analyses of interactions between death-associated protein kinase 1 and anthraquinones2020

    • Author(s)
      Yokoyama Takeshi、Wijaya Peter、Kosaka Yuto、Mizuguchi Mineyuki
    • Journal Title

      Acta Crystallographica Section D Structural Biology

      Volume: 76 Issue: 5 Pages: 438-446

    • DOI

      10.1107/s2059798320003940

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Structural and thermodynamic characterization of the binding of isoliquiritigenin to the first bromodomain of BRD42019

    • Author(s)
      Yokoyama Takeshi、Matsumoto Kazunori、Ostermann Andreas、Schrader Tobias E.、Nabeshima Yuko、Mizuguchi Mineyuki
    • Journal Title

      The FEBS Journal

      Volume: 286 Issue: 9 Pages: 1656-1667

    • DOI

      10.1111/febs.14736

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Presentation] Hsp72-NBD-ADP複合体の中性子結晶構造解析2021

    • Author(s)
      横山 武司、藤井 志帆、Andreas Ostermann、Tobias E Schrader、鍋島 裕子、水口峰之
    • Organizer
      日本結晶学会
    • Related Report
      2021 Annual Research Report
  • [Presentation] クラウンエーテルによるトランスサイレチンアミロイド形成のアロステリック阻害2019

    • Author(s)
      横山武司,水口峰之
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] 茨城県生命構造解析装置iBIXによるトランスサイレチン変異体の中性子回折実験2019

    • Author(s)
      日下勝弘,横山武司,山田太郎,矢野直峰,田中伊知朗,水口峰之
    • Organizer
      第19回日本蛋白質科学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] 創薬標的タンパク質の中性子結晶構造解析2019

    • Author(s)
      横山武司
    • Organizer
      第57回日本生物物理学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Discovery of Molecular-Targeted Drugs by X-ray Crystallographic Screening2019

    • Author(s)
      Yokoyama T
    • Organizer
      Internatinal Symposium on Diffraction Structural Bioloty 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Neutron diffraction experiment of transthyretin variant by using iBIX at J-PARC2019

    • Author(s)
      Kusaska K, Yokoyama T, Yamada T, Yano N, Tanaka I, Mizuguchi M
    • Organizer
      Internatinal Symposium on Diffraction Structural Bioloty 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] X 線結晶解析スクリーニングによる分子標的薬の探索2019

    • Author(s)
      横山武司,松本知憲,北上龍太,鍋島裕子,アンドレアス オスターマン,トビアス シュレイダー,水口 峰之
    • Organizer
      日本結晶学会 令和元年(2019年)度年会
    • Related Report
      2019 Research-status Report

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Published: 2019-04-18   Modified: 2023-01-30  

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