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Development of inhibitors targeting enzymatic activity of SARS-CoV-2 proteases

Research Project

Project/Area Number 21K07050
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 49060:Virology-related
Research InstitutionChiba University

Principal Investigator

Tyuji Hoshino  千葉大学, 大学院薬学研究院, 准教授 (90257220)

Project Period (FY) 2021-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2023: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2022: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2021: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywords抗ウイルス薬 / 計算機スクリーニング / X線結晶構造解析 / 薬物有機合成 / 阻害活性 / プロテアーゼ / 新型コロナウイルス感染症 / 阻害剤 / ウイルスプロテアーゼ / 計算機薬物設計 / 結晶構造解析
Outline of Research at the Start

新型コロナウイルス感染症は、現在、人類にとって大きな脅威となっており、SARS-CoV-2増殖阻害剤の開発は喫緊の課題である。本研究では、理論計算・タンパク質生化学実験・X線結晶構造解析・有機合成・ウイルス感染実験を融合させた研究を遂行して、SARS-CoV-2に有効な抗ウイルス薬を創出する。新規薬物の創出において、構造情報を生かした効率的な研究を行う。既に、SARS-CoV-2の3CLプロテーゼ、PLプロテアーゼ、ポリメラーゼの3つを標的タンパク質として、認可薬ならびに臨床試験薬のデータベースを用いて、計算機スクリーニングを実施している。計算結果より幾つかの候補薬物を選定している。

Outline of Final Research Achievements

In order to create an effective antiviral drug for SARS-CoV-2, we carried out a study combining theoretical calculations, X-ray crystallography, organic synthesis, and biochemical experiments. An original software, Orientation, was used for the optimization molecular mechanics calculation. We selected the compounds expected to be effective against three target proteins, 3CL protease, PL protease, and polymerase, by computer analysis. Then, we purchased them for experimental assay. 3CL protease and PL protease were expressed and purified as recombinant proteins. The purified enzymes were used to determine the protease inhibitory activity. Five compounds showed clear inhibitory effects from in vitro measurements. Three compounds showed inhibitory activity against both 3CL protease and PL protease. The predicted binding structures were examined on the five identified chemicals in terms of the interaction with the protease catalytic site.

Academic Significance and Societal Importance of the Research Achievements

SARS-CoV-2増殖阻害薬の開発については、多くの研究が行われ、新型コロナウイルス感染症治療薬の一つとして、ウイルスの3CLプロテアーゼを阻害するエンシトレルビルが承認されている。ウイルスのPLプロテアーゼについても阻害薬の探索研究が行われているが、研究報告例は少ない。感染治療においては、変異ウイルスへの対処に向けて作用機序の異なる複数の薬物の準備が必要であり、PLプロテアーゼを標的とした薬物開発は重要である。今回、PLプロテアーゼを阻害する薬物を見出せたことに意義がある。

Report

(4 results)
  • 2023 Annual Research Report   Final Research Report ( PDF )
  • 2022 Research-status Report
  • 2021 Research-status Report
  • Research Products

    (13 results)

All 2024 2023 2022 2021 Other

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

  • [Int'l Joint Research] National Institute of Chemistry/University of Ljubljana(スロベニア)

    • Related Report
      2022 Research-status Report
  • [Journal Article] <i>In Silico</i> Identification of Inhibitory Compounds for SARS-Cov-2 Papain-Like Protease2023

    • Author(s)
      Miwa Kazunori、Guo Yan、Hata Masayuki、Hirano Yoshinori、Yamamoto Norio、Hoshino Tyuji
    • Journal Title

      Chemical and Pharmaceutical Bulletin

      Volume: 71 Issue: 12 Pages: 897-905

    • DOI

      10.1248/cpb.c23-00622

    • ISSN
      0009-2363, 1347-5223
    • Year and Date
      2023-12-01
    • Related Report
      2023 Annual Research Report
  • [Journal Article] Computational Screening of Inhibitory Compounds for SARS-Cov-2 3CL Protease with a Database Consisting of Approved and Investigational Chemicals2023

    • Author(s)
      Miwa Kazunori、Guo Yan、Hata Masayuki、Yamamoto Norio、Hoshino Tyuji
    • Journal Title

      Chemical and Pharmaceutical Bulletin

      Volume: 71 Issue: 5 Pages: 360-367

    • DOI

      10.1248/cpb.c23-00035

    • ISSN
      0009-2363, 1347-5223
    • Year and Date
      2023-05-01
    • Related Report
      2023 Annual Research Report
  • [Journal Article] Sticklac-Derived Natural Compounds Inhibiting RNase H Activity of HIV-1 Reverse Transcriptase2023

    • Author(s)
      Ito Yuma、Lu Huiyan、Kitajima Mariko、Ishikawa Hayato、Nakata Yoshihiro、Iwatani Yasumasa、Hoshino Tyuji
    • Journal Title

      Journal of Natural Products

      Volume: 86 Issue: 11 Pages: 2487-2495

    • DOI

      10.1021/acs.jnatprod.3c00662

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Computational and Crystallographic Analysis of Binding Structures of Inhibitory Compounds for HIV-1 RNase H Activity2022

    • Author(s)
      Lu Huiyan、Komukai Yuji、Usami Koto、Guo Yan、Qiao Xinyue、Nukaga Michiyoshi、Hoshino Tyuji
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 62 Issue: 24 Pages: 6762-6774

    • DOI

      10.1021/acs.jcim.2c00537

    • Related Report
      2022 Research-status Report
    • Peer Reviewed
  • [Journal Article] Influence of Glycan Agents on Protein Crystallization with Ammonium Sulfate2022

    • Author(s)
      Guo Yan、Hoshino Tyuji
    • Journal Title

      Crystal Growth &amp; Design

      Volume: 22 Issue: 11 Pages: 6751-6765

    • DOI

      10.1021/acs.cgd.2c00901

    • Related Report
      2022 Research-status Report
    • Peer Reviewed
  • [Journal Article] Identification of the Inhibitory Compounds for Metallo-β-lactamases and Structural Analysis of the Binding Modes2021

    • Author(s)
      Kamo T, Kuroda K, Kondo S, Hayashi U, Fudo S, Yoneda T, Takaya A, Nukaga M, Hoshino T.
    • Journal Title

      Chemical and Pharmaceutical Bulletin

      Volume: 69 Issue: 12 Pages: 1179-1183

    • DOI

      10.1248/cpb.c21-00611

    • NAID

      130008123292

    • ISSN
      0009-2363, 1347-5223
    • Year and Date
      2021-12-01
    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Analysis of Binding Modes of Antigen-Antibody Complexes by Molecular Mechanics Calculation2021

    • Author(s)
      Qu Liang、Qiao Xinyue、Qi Fei、Nishida Noritaka、Hoshino Tyuji
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 61 Issue: 5 Pages: 2396-2406

    • DOI

      10.1021/acs.jcim.1c00167

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Journal Article] Quantifying the Separation of Positive and Negative Areas in Electrostatic Potential for Predicting Feasibility of Ammonium Sulfate for Protein Crystallization2021

    • Author(s)
      Guo Yan、Nishida Noritaka、Hoshino Tyuji
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume: 61 Issue: 9 Pages: 4571-4581

    • DOI

      10.1021/acs.jcim.1c00505

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Journal Article] Secondary Structure and Conformational Stability of the Antigen Residues Making Contact with Antibodies2021

    • Author(s)
      Qiao Xinyue、Qu Liang、Guo Yan、Hoshino Tyuji
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 125 Issue: 41 Pages: 11374-11385

    • DOI

      10.1021/acs.jpcb.1c05997

    • Related Report
      2021 Research-status Report
    • Peer Reviewed
  • [Presentation] ドッキングシミュレーションと構造最適化計算を用いたSARS CoV-2 papain-like protease阻害薬の探索2024

    • Author(s)
      三輪 和範、郭 艶、畑 晶之、平野 秀典、山本 典生、星野 忠次
    • Organizer
      日本薬学会第144年会
    • Related Report
      2023 Annual Research Report
  • [Remarks] 千葉大学・大学院薬学研究院・理論創薬研究室

    • URL

      https://www.p.chiba-u.jp/lab/riron/

    • Related Report
      2023 Annual Research Report 2022 Research-status Report
  • [Remarks] 千葉大学・大学院薬学研究院・薬品物理化学研究室

    • URL

      https://www.p.chiba-u.jp/lab/bukka/index.html

    • Related Report
      2021 Research-status Report

URL: 

Published: 2021-04-28   Modified: 2025-01-30  

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