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Mechanistic Enzymology of Radical SAM Enzymes in Natural Product Biosynthesis

Research Project

Project/Area Number 18H02095
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Review Section Basic Section 37020:Chemistry and chemical methodology of biomolecules-related
Research InstitutionTokyo Institute of Technology

Principal Investigator

Eguchi Tadashi  東京工業大学, 理学院, 教授 (60201365)

Project Period (FY) 2018-04-01 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥17,160,000 (Direct Cost: ¥13,200,000、Indirect Cost: ¥3,960,000)
Fiscal Year 2021: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2020: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2019: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2018: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
KeywordsラジカルSAM酵素 / 天然物 / 生合成 / 反応機構 / ラジカルSAM酵 / 機能解析
Outline of Final Research Achievements

In this study, functional analysis of a radical S-adenosyl-L-methionine (SAM) adenosylhopane synthase HpnH and a methylcobalamin-dependent radical SAM methyltransferase Orf29 were performed.
Adenosylhopane is found to be formed by a crosslinking reaction between diploptene and a 5'-deoxyadenosyl radical that is generated by the radical S-adenosyl-L-methionine (SAM) enzyme HpnH. Further, we successfully propose that the thiol of Cys106 stereoselectively reduces the radical intermediate generated at the C22 position by the addition of the 5'-deoxadenosyl radical to diploptene, to complete the reaction.
By in vitro analysis using Orf29, Orf29 was found to catalyze the C-methylation of the L-methionine moiety of SAM. The resulting methylated derivative of SAM was then converted into 1-amino-2-methylcyclopropancarboxylic acid by Orf30. Thus, we demonstrate that C-methylation of SAM occurs prior to cyclopropanation in the biosynthesis of a bacterial 1-amino-2-methylcyclopropancarboxylic acid.

Academic Significance and Societal Importance of the Research Achievements

本研究では未解明のラジカルSAM酵素の機能および反応機構解析を目的とした。生体内酵素反応は、すべてイオン的な反応メカニズムによって触媒されると考えられてきた。しかし、有機ラジカル中間体が関与する酵素反応の例が明らかになり始め、現在ではラジカル中間体を経由する反応機構が広く受け入れられている。ラジカル機構を利用する酵素は、イオン的なメカニズムによって触媒するのが難しい、あるいは不可能と考えられる反応がラジカル中間体を経て反応を進行させている。本研究で明らかにしたラジカルSAM酵素の反応はラジカルを経て行われる酵素化学の深化および新たな酵素化学の領域を築けたと考えている。

Report

(5 results)
  • 2021 Annual Research Report   Final Research Report ( PDF )
  • 2020 Annual Research Report
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • Research Products

    (14 results)

All 2022 2021 2020 2019 2018 Other

All Journal Article (7 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 7 results,  Open Access: 1 results) Presentation (5 results) Remarks (2 results)

  • [Journal Article] Characterization of the Cobalamin-Dependent Radical SAM C-Methyltransferase Fom3 in Fosfomycin Biosynthesis2022

    • Author(s)
      Shusuke Sato, Fumitaka Kudo, Tadashi Eguchi
    • Journal Title

      Methods Enzymol.

      Volume: 669 Pages: 45-70

    • DOI

      10.1016/bs.mie.2021.11.025

    • ISBN
      9780323955577
    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Biochemical and Mutational Analysis of Radical S-Adenosyl-L-Methionine Adenosylhopane Synthase HpnH from Zymomonas mobilis Reveals that the Conserved Residue Cysteine-106 Reduces a Radical Intermediate and Determines the Stereochemistry2021

    • Author(s)
      Sato Shusuke、Kudo Fumitaka、Rohmer Michel、Eguchi Tadashi
    • Journal Title

      Biochemistry

      Volume: 60 Issue: 38 Pages: 2865-2874

    • DOI

      10.1021/acs.biochem.1c00536

    • Related Report
      2021 Annual Research Report
    • Peer Reviewed
  • [Journal Article] C-Methylation of S-adenosyl-L-Methionine Occurs Prior to Cyclopropanation in the Biosynthesis of 1-Amino-2-Methylcyclopropanecarboxylic Acid (Norcoronamic Acid) in a Bacterium2020

    • Author(s)
      Maruyama Chitose、Chinone Yukiko、Sato Shusuke、Kudo Fumitaka、Ohsawa Kosuke、Kubota Junya、Hashimoto Junko、Kozone Ikuko、Doi Takayuki、Shin-ya Kazuo、Eguchi Tadashi、Hamano Yoshimitsu
    • Journal Title

      Biomolecules

      Volume: 10 Issue: 5 Pages: 775-775

    • DOI

      10.3390/biom10050775

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Characterization of Radical SAM Adenosylhopane Synthase, HpnH, which Catalyzes the 5′-Deoxyadenosyl Radical Addition to Diploptene in the Biosynthesis of C35 Bacteriohopanepolyols2020

    • Author(s)
      Sato Shusuke、Kudo Fumitaka、Rohmer Michel、Eguchi Tadashi
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 59 Issue: 1 Pages: 237-241

    • DOI

      10.1002/anie.201911584

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] 抗生物質ホスホマイシン生合成の全貌解明2019

    • Author(s)
      佐藤秀亮, 工藤史貴, 江口正
    • Journal Title

      バイオサイエンスとインダストリー

      Volume: 77 Pages: 378-379

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] C-Methylation Catalyzed by Fom3, a Cobalamin-Dependent Radical S-adenosyl-l-methionine Enzyme in Fosfomycin Biosynthesis, Proceeds with Inversion of Configuration2018

    • Author(s)
      Sato, S., Kudo, F., Kuzuyama, T., Hammerschmidt, F., Eguchi, T.
    • Journal Title

      Biochemistry

      Volume: 57 Issue: 33 Pages: 4963-4966

    • DOI

      10.1021/acs.biochem.8b00614

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Biochemical and structural analysis of FomD that catalyzes the hydrolysis of cytidylyl (S)-2-hydroxypropylphosphonate in fosfomycin biosynthesis2018

    • Author(s)
      Sato, S., Miyanaga, A., Kim, S. Y., Kuzuyama, T., Kudo, F., Eguchi, T.
    • Journal Title

      Biochemistry

      Volume: 57 Issue: 32 Pages: 4858-4866

    • DOI

      10.1021/acs.biochem.8b00690

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Presentation] 1-アミノ-2-メチルシクロプロパンカルボン 酸生合成におけるメチル基転移酵素の機能 解析2022

    • Author(s)
      湊 敦志、佐藤 秀亮、丸山 千登勢、濱野 吉十 、工藤 史貴、江口 正
    • Organizer
      日本化学会 第102春季年会
    • Related Report
      2021 Annual Research Report
  • [Presentation] バクテリオホパンポリオール生合成において炭素-炭素結合形成反応を触媒 するラジカル SAM 酵素 HpnH の機能解析2021

    • Author(s)
      佐藤 秀亮,工藤 史貴,Michel Rohmer,江口 正
    • Organizer
      第63回天然有機化合物討論会
    • Related Report
      2021 Annual Research Report
  • [Presentation] バクテリオホパンポリオール生合成において炭素-炭素結合形成反応を触媒するラジカルSAM酵素HpnHの機能解析2021

    • Author(s)
      佐藤 秀亮、工藤 史貴、Michel Rohmer、江口 正
    • Organizer
      日本化学会第101春季年会
    • Related Report
      2020 Annual Research Report
  • [Presentation] Radical SAM C-Methylation in Fosfomycin Biosynthesis2019

    • Author(s)
      Shusuke Sato, Fumitaka Kudo, Tomohisa Kuzuyama, Tadashi Eguchi
    • Organizer
      日本化学会 第99春季年会
    • Related Report
      2018 Annual Research Report
  • [Presentation] ホスホマイシン生合成における新規加水分解酵素 FomD の機能解析2019

    • Author(s)
      佐藤秀亮,宮永顕正,工藤史貴,葛山智久, 江口 正
    • Organizer
      日本農芸化学会2019年度(平成31年度)大会
    • Related Report
      2018 Annual Research Report
  • [Remarks] 江口・工藤研究室

    • URL

      http://www.chemistry.titech.ac.jp/~eguchi/index.html

    • Related Report
      2021 Annual Research Report 2020 Annual Research Report 2019 Annual Research Report
  • [Remarks] 東京工業大学 理学院 化学系 江口・工藤研究室

    • URL

      http://www.chemistry.titech.ac.jp/~eguchi/

    • Related Report
      2018 Annual Research Report

URL: 

Published: 2018-04-23   Modified: 2023-01-30  

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