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Structure and functional analysis of the SARS-CoV-2 Nucleocapsid Protein

Research Project

Project/Area Number 21H02449
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43040:Biophysics-related
Research InstitutionYokohama City University

Principal Investigator

Park Sam-Yong  横浜市立大学, 生命医科学研究科, 教授 (20291932)

Co-Investigator(Kenkyū-buntansha) 渡士 幸一  国立感染症研究所, 治療薬・ワクチン開発研究センター, 総括研究官 (40378948)
Project Period (FY) 2021-04-01 – 2024-03-31
Project Status Completed (Fiscal Year 2023)
Budget Amount *help
¥17,550,000 (Direct Cost: ¥13,500,000、Indirect Cost: ¥4,050,000)
Fiscal Year 2023: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
Fiscal Year 2022: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2021: ¥8,320,000 (Direct Cost: ¥6,400,000、Indirect Cost: ¥1,920,000)
Keywords新型コロナウイルス / Nタンパク質 / 構造生物学 / Xタンパク質 / 構造生物学研究
Outline of Research at the Start

SARS-CoV-2は2020年3月にWHOによりパンデミックとして認定され世界中に広がり、感染による死亡者は数多く、国内外の製薬社や研究機関により、ワクチンやin-silico手法による創薬開発は活発に行われているが開発までには時間がかかる事とウイルス関する学問的な知見が足りない。本計画班の目指すSARS-CoV-2のNタンパク質の構造やウイルスの増殖機構解明は、それを基に細胞内でのウイルス増殖現象の制御・治療・創薬スクリーニングという広大な新分野の開拓を先導するものであり、かつ学術面で独創的な新領域の研究分野であると言える。

Outline of Final Research Achievements

The N-protein has a molecular weight of about 50 kDa. with 419 amino acid residues. The N-protein was confirmed by an expression system and mass expression was achieved in E. coli. The N-protein has a molecular weight of about 450 kDa. in an 8-complex, making it an ideal sample for single particle analysis by cryo-EM. In addition, the conditions for crystallization of the complexed N protein were investigated using an automated crystallization robot dispensing system. As a result of about 1,000 conditions, poly crystals were obtained under 0.1M sodium citrate pH 5.0, 10%(w/v) PEG20K conditions, and after optimization, crystals averaging 30 microns in diameter were obtained. Using an experimental X-ray generator, we confirmed the reflection points and obtained reflection points of approximately 4A. In the future, we plan to study the conditions for high quality crystallization and perform X-ray diffraction experiments at a large synchrotron radiation facility.

Academic Significance and Societal Importance of the Research Achievements

人類は21世紀に入り、2002年の重症急性呼吸器症候群(SARS)であり、コウモリが原因であると報告されている。その後、2019年末には、SARS-CoV-2は中国の武漢で呼吸器疾患のアウトブレイクを引き起こした。コロナウイルスは一本鎖RNAウイルスで、ヒトへの感染が確認されているCoVは7種類が存在している。これらのCoVに感染すると様々な重症度の呼吸器症状を発症する。今後、生物学的な感染機構解明や合理的で有効な治療薬の開発を急務とされている。本研究はウイルスRNAアセンブリーの安定化に関わっているNタンパク質の構造解明によるウイルスの増殖機構解明を目指し、構造解明を行なった。

Report

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

    (6 results)

All 2023 2022 2021

All Journal Article (6 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 6 results,  Open Access: 5 results)

  • [Journal Article] Structural basis of CXC chemokine receptor 1 ligand binding and activation2023

    • Author(s)
      Ishimoto Naito、Park Jae-Hyun、Kawakami Kouki、Tajiri Michiko、Mizutani Kenji、Akashi Satoko、Tame Jeremy R. H.、Inoue Asuka、Park Sam-Yong
    • Journal Title

      Nature Communications

      Volume: 14 Issue: 1 Pages: 4107-4107

    • DOI

      10.1038/s41467-023-39799-2

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structural basis for ligand recognition and signaling of hydroxy-carboxylic acid receptor 22023

    • Author(s)
      Park Jae-Hyun、Kawakami Kouki、Ishimoto Naito、Ikuta Tatsuya、Ohki Mio、Ekimoto Toru、Ikeguchi Mitsunori、Lee Dong-Sun、Lee Young-Ho、Tame Jeremy R. H.、Inoue Asuka、Park Sam-Yong
    • Journal Title

      Nature Communications

      Volume: 14 Issue: 1 Pages: 7150-7150

    • DOI

      10.1038/s41467-023-42764-8

    • Related Report
      2023 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Structure of the human galanin receptor 2 bound to galanin and Gq reveals the basis of ligand specificity and how binding affects the G-protein interface2022

    • Author(s)
      Heo Yunseok、Ishimoto Naito、Jeon Ye-Eun、Yun Ji-Hye、Ohki Mio、Anraku Yuki、Sasaki Mina、Kita Shunsuke、Fukuhara Hideo、Ikuta Tatsuya、Kawakami Kouki、Inoue Asuka、Maenaka Katsumi、Tame Jeremy R. H.、Lee Weontae、Park Sam-Yong
    • Journal Title

      PLOS Biology

      Volume: 20 Issue: 8 Pages: e3001714-e3001714

    • DOI

      10.1371/journal.pbio.3001714

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structural insights into the HBV receptor and bile acid transporter NTCP2022

    • Author(s)
      Park JH, Iwamoto M, Yun JH, Uchikubo-Kamo T, Son D, Jin Z, Yoshida H, Ohki M, Ishimoto N, Mizutani K, Oshima M, Muramatsu M, Wakita T, Shirouzu M, Liu K, Uemura T, Nomura N, Iwata S, Watashi K, Tame JRH, Nishizawa T, Lee W, Park SY.
    • Journal Title

      Nature

      Volume: 606 Issue: 7916 Pages: 1027-1031

    • DOI

      10.1038/s41586-022-04857-0

    • Related Report
      2022 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Leucine-sensing mechanism of leucyl-tRNA synthetase 1 for mTORC1 activation.2021

    • Author(s)
      Kim S, Yoon I, Son J, Park J, Kim K, Lee JH, Park SY, Kang BS, Han JM, Hwang KY, Kim S.
    • Journal Title

      Cell Rep.

      Volume: 35(4) Issue: 4 Pages: 1-13

    • DOI

      10.1016/j.celrep.2021.109031

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Early-stage dynamics of chloride ion-pumping rhodopsin revealed by a femtosecond X-ray laser.2021

    • Author(s)
      MS, Liang M, Sierra RG, Lane TJ, Zhou L, Weierstall U, Zatsepin NA, Ohki M, Tame JRH, Park SY, Spence JCH, Zhang W, Schmidt M, Lee W, Liu H.
    • Journal Title

      Proc Natl Acad Sci U S A.

      Volume: 118(13) Issue: 13 Pages: 1-9

    • DOI

      10.1073/pnas.2020486118

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed

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

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