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Structural and Functional analysis on tripartite ABC transporters.

Research Project

Project/Area Number 18H02386
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 43020:Structural biochemistry-related
Research InstitutionTokyo Institute of Technology

Principal Investigator

MURAKAMI SATOSHI  東京工業大学, 生命理工学院, 教授 (30300966)

Co-Investigator(Kenkyū-buntansha) 成田 新一郎  山形県立米沢栄養大学, 健康栄養学部, 教授 (30338751)
徳田 元  盛岡大学, その他部局等, 名誉教授 (40125943)
Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥17,290,000 (Direct Cost: ¥13,300,000、Indirect Cost: ¥3,990,000)
Fiscal Year 2020: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2019: ¥5,460,000 (Direct Cost: ¥4,200,000、Indirect Cost: ¥1,260,000)
Fiscal Year 2018: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
Keywords構造生物学 / X線結晶構造解析 / 膜輸送 / 膜蛋白質 / 薬剤耐性 / ABC輸送体 / 薬剤排出
Outline of Final Research Achievements

We solved a high-resolution crystal structure of MacB homolog. Compared to the published MacB structure, we observed several structural differences between them, especially around the transmembrane and the periplasmic domain. Comparison of these structures provides new insight on how substrates in the periplasm are captured and transported through the connecting pathway. In addition, we found that the substrate transport mechanism from the periplasmic space is similar to that of RND transporters, which we are studying separately. In view of the similarities and differences in substrate transport mechanisms, we proposed the “periplasmic alternating-access mechanism”. We also helped to propose a new classification of ABC transporters by the ABC transporter research society. And MacB is newly categolised as the type-VII ABC transporter.

Academic Significance and Societal Importance of the Research Achievements

感染症は人間社会を一変させることを我々はここ1,2年で思い知った。ウイルス感染症に限らず、細菌感染症もまた脅威である。抗生物質はその有効性を徐々に失いつつある。ウイルスの陰で薬剤耐性菌が増えているという事実も報告され始めた。嫌なニュースである。抗生物質の能動的な排出の機構の理解は、輸送阻害剤の開発のほか、排出されにくい薬剤の設計にも利用可能な知見であり、人類の福祉にとって極めて重要な研究内容であると考える。基礎学問的にもどのようにしてグラム陰性細菌が斯くも多様なトランスポーターを分子進化のなかで保持してきたのかという興味に一歩近づけたと考えている。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (19 results)

All 2020 2019 2018 Other

All Int'l Joint Research (1 results) Journal Article (11 results) (of which Int'l Joint Research: 4 results,  Peer Reviewed: 11 results,  Open Access: 8 results) Presentation (7 results) (of which Int'l Joint Research: 7 results,  Invited: 6 results)

  • [Int'l Joint Research] University of Cambridge(英国)

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Structural and functional diversity calls for a new classification of ABC transporters2020

    • Author(s)
      Thomas Christoph、Ueda Kazumitsu、Tampe Robert et al.
    • Journal Title

      FEBS Letters

      Volume: 594 Issue: 23 Pages: 3767-3775

    • DOI

      10.1002/1873-3468.13935

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Tripartite transporters as mechanotransmitters in periplasmic alternating-access mechanisms.2020

    • Author(s)
      Murakami, Okada, van Veen
    • Journal Title

      FEBS Letters

      Volume: 594 Issue: 23 Pages: 3908-3919

    • DOI

      10.1002/1873-3468.13929

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] 三者複合体形成型ABCトランスポーターMacBの構造解析2020

    • Author(s)
      岡田 有意、村上 聡
    • Journal Title

      Farumashia

      Volume: 56 Issue: 6 Pages: 499-503

    • DOI

      10.14894/faruawpsj.56.6_499

    • NAID

      130007850168

    • ISSN
      0014-8601, 2189-7026
    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Reversible auto-inhibitory regulation of Escherichia coli metallopeptidase BepA for selective β-barrel protein degradation.2020

    • Author(s)
      Daimon 他7名
    • Journal Title

      Proc. Natl. Acad. Sci. USA.

      Volume: 117 Issue: 45 Pages: 27989-27996

    • DOI

      10.1073/pnas.2010301117

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] BpeB, a major resistance-nodulation-cell division transporter from Burkholderia cenocepacia: construct design, crystallization and preliminary structural analysis2018

    • Author(s)
      T. Horikawa, L.-W. Hung, H.-B. Kim, D. Shaya, C.-Y. Kim, T. C. Terwilliger, E. Yamashita, M. Aoki, U. Okada and S. Murakami
    • Journal Title

      Acta Crystallogr. F

      Volume: 74 Issue: 11 Pages: 710-716

    • DOI

      10.1107/s2053230x18013547

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Growth of high-quality metastable crystal of acetaminophen using solution-mediated phase transformation at low supersaturation2018

    • Author(s)
      Fujimoto Riki、Maruyama Mihoko、Mori Yoichiro、Okada Shino、Adachi Hiroaki、Yoshikawa Hiroshi Y.、Takano Kazufumi、Murakami Satoshi、Matsumura Hiroyoshi、Inoue Tsuyoshi、Imanishi Masayuki、Tsukamoto Katsuo、Yoshimura Masashi、Mori Yusuke
    • Journal Title

      Journal of Crystal Growth

      Volume: 502 Pages: 76-82

    • DOI

      10.1016/j.jcrysgro.2018.09.012

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Atomic-Scale Imaging of Surface and Hydration Structures of Stable and Metastable Acetaminophen Crystals by Frequency Modulation Atomic Force Microscopy2018

    • Author(s)
      Kobayashi Naritaka、Maruyama Mihoko、Mori Yoichiro、Fukukita Suguru、Adachi Hiroaki、Takano Kazufumi、Murakami Satoshi、Matsumura Hiroyoshi、Inoue Tsuyoshi、Yoshimura Masashi、Nakabayashi Seiichiro、Mori Yusuke、Yoshikawa Hiroshi Y.
    • Journal Title

      The Journal of Physical Chemistry C

      Volume: 122 Issue: 38 Pages: 21983-21990

    • DOI

      10.1021/acs.jpcc.8b06928

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Powering the ABC multidrug exporter LmrA: How nucleotides embrace the ion-motive force2018

    • Author(s)
      Agboh Kelvin、Lau Calvin H. F.、Khoo Yvonne S. K.、Singh Himansha、Raturi Sagar、Nair Asha V.、Howard Julie、Chiapello Marco、Feret Renata、Deery Michael J.、Murakami Satoshi、van Veen Hendrik W.
    • Journal Title

      Science Advances

      Volume: 4 Issue: 9 Pages: 9365-9365

    • DOI

      10.1126/sciadv.aas9365

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Structure of the γ?ε complex of cyanobacterial F1-ATPase reveals a suppression mechanism of the γ subunit on ATP hydrolysis in phototrophs2018

    • Author(s)
      Murakami Satoshi、Kondo Kumiko、Katayama Shinya、Hara Satoshi、Sunamura Ei-ichiro、Yamashita Eiki、Groth Georg、Hisabori Toru
    • Journal Title

      Biochemical Journal

      Volume: 475 Issue: 18 Pages: 2925-2939

    • DOI

      10.1042/bcj20180481

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Energetics and Conformational Pathways of Functional Rotation in the Multidrug Transporter AcrB2018

    • Author(s)
      Y. Matsunaga, T. Yamane, T. Terada, K. Moritsugu, H. Fujisaki, S. Murakami, M. Ikeguchi, A. Kidera
    • Journal Title

      eLife

      Volume: 7 Pages: 1-19

    • DOI

      10.7554/elife.31715

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Improvement of metastable crystal of acetaminophen via control of crystal growth rate2018

    • Author(s)
      Nii Kosuke、Maruyama Mihoko、Okada Shino、Adachi Hiroaki、Takano Kazufumi、Murakami Satoshi、Yoshikawa Hiroshi Y.、Matsumura Hiroyoshi、Inoue Tsuyoshi、Imanishi Masayuki、Tsukamoto Katsuo、Yoshimura Masashi、Mori Yusuke
    • Journal Title

      Applied Physics Express

      Volume: 11 Issue: 3 Pages: 035501-035501

    • DOI

      10.7567/apex.11.035501

    • NAID

      210000136139

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] Structure of the tripartite-ABC transporter, MacB2020

    • Author(s)
      Satoshi Murakami
    • Organizer
      8th FEBS special meeting. ATP-binding cassette(ABC) proteins: From Multidrug resistance to genetic disease.
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structural analysis of membrane transporters at an atomic level2019

    • Author(s)
      Satoshi Murakami
    • Organizer
      FEBS advanced course of biochemistry of membrane proteins. Structure, Trafficking, Regulation
    • Related Report
      2019 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Crystal and cryo-EM structures of tripartite-ABC transporter, MacB2019

    • Author(s)
      Satoshi Murakami
    • Organizer
      Gordon Research Conference on Multi-drug Efflux Systems
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Structure and function of tripartite drug efflux transporters in Gram-negative bacteria2019

    • Author(s)
      Satoshi Murakami
    • Organizer
      International Conference on Advanced Chemical and Structural Biology
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structure and molecular mechanism of the tripartite drug efflux transporter, AcrB2019

    • Author(s)
      Satoshi Murakami
    • Organizer
      Symposium on Biomolecular Interactions / NCBS, Bangalore, India
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structure and function of tripartite drug efflux transporters in Gram-negative bacteria2018

    • Author(s)
      Satoshi Murakami
    • Organizer
      アジア国際結晶学会 2018/CRYSTAL 32
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Structure and function of tripartite drug efflux transporters in Gram-negative bacteria2018

    • Author(s)
      Satoshi Murakami
    • Organizer
      Inaugural Conference of the International Transmembrane Transporter Society, 2018
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited

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Published: 2018-04-23   Modified: 2023-03-20  

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