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Development of chimeric peptide ligands using a macrocyclic scaffold found in natural products

Research Project

Project/Area Number 19K22243
Research Category

Grant-in-Aid for Challenging Research (Exploratory)

Allocation TypeMulti-year Fund
Review Section Medium-sized Section 37:Biomolecular chemistry and related fields
Research InstitutionThe University of Tokyo

Principal Investigator

GOTO Yuki  東京大学, 大学院理学系研究科(理学部), 准教授 (70570604)

Project Period (FY) 2019-06-28 – 2022-03-31
Project Status Completed (Fiscal Year 2021)
Budget Amount *help
¥6,500,000 (Direct Cost: ¥5,000,000、Indirect Cost: ¥1,500,000)
Fiscal Year 2021: ¥2,340,000 (Direct Cost: ¥1,800,000、Indirect Cost: ¥540,000)
Fiscal Year 2020: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2019: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywordsペプチド / RiPP / 擬天然物 / チオペプチド
Outline of Research at the Start

次世代型の創薬候補分子として、中分子サイズの環状ペプチドが近年注目されているものの、ペプチドは細胞膜通過性が低く、細胞内の創薬標的を阻害する人工ペプチド薬剤を自在に開発する原理は現時点では存在しない。そこで本研究では、望みの標的に結合する人工ペプチドリガンド配列と天然物由来の閉環様式を融合させたキメラペプチドを作製することで、細胞内で阻害活性を発揮する環状ペプチド薬剤を信頼性良く開発する汎用原理を確立することを目指す。

Outline of Final Research Achievements

Medium-sized macrocyclic peptides with nonproteinogenic building blocks have been revisited as a promising therapeutic modality. We previously established an in vitro selection method for artificial cyclic peptide ligands and have succeeded in developing a wide variety of artificial peptide agents. However, there are still many issues to be solved for the practical use of artificial cyclic peptides as drugs, such as pharmacokinetics, stability against peptidases, and permeability through cell membranes. In this study, we conceived the idea of combining artificial cyclic peptide sequences obtained by the in vitro selection technology with the ring-closing skeleton found in thiopeptides, a family of naturally occurring bioactive peptides. Based on this strategy, we have developed chimeric cyclic peptides that are expected to have better physical properties as pharmaceuticals.

Academic Significance and Societal Importance of the Research Achievements

多くの水素結合部位を有するポリアミド主鎖から成るペプチド分子は本質的に水和状態が安定であり、疎水場である細胞膜を通過できるものは稀である。そのためペプチドを細胞内で働く薬剤として活用するには、余分な細胞内移行シグナル配列を用いたり、高度な細胞内デリバリーシステムの利用が必要であることが多いのが現状である。本研究では、「人工ペプチド配列と天然物の閉環骨格を組み合わせる」というごくシンプルな戦略で、良好な膜透過性が期待できる新たなクラスのペプチド薬剤の設計の道を拓いた。それゆえ、このキメラペプチドの設計戦略は、将来的に細胞内を標的とする中分子医薬品を開発する上での標準戦略となる可能性を秘めている。

Report

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

    (32 results)

All 2021 2020 2019 Other

All Int'l Joint Research (3 results) Journal Article (17 results) (of which Int'l Joint Research: 5 results,  Peer Reviewed: 13 results,  Open Access: 2 results) Presentation (12 results) (of which Int'l Joint Research: 4 results,  Invited: 10 results)

  • [Int'l Joint Research] Princeton University/Univ. of North Carolina at Chapel Hill(米国)

    • Related Report
      2020 Research-status Report
  • [Int'l Joint Research] National University of Singapore(シンガポール)

    • Related Report
      2020 Research-status Report
  • [Int'l Joint Research] Univ. of North Carolina at Chapel Hill(米国)

    • Related Report
      2019 Research-status Report
  • [Journal Article] Posttranslational chemical installation of azoles into translated peptides2021

    • Author(s)
      Tsutsumi Haruka、Kuroda Tomohiro、Kimura Hiroyuki、Goto Yuki、Suga Hiroaki
    • Journal Title

      Nature Communications

      Volume: 12 Issue: 1 Pages: 696-696

    • DOI

      10.1038/s41467-021-20992-0

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] New developments in RiPP discovery, enzymology and engineering2021

    • Author(s)
      Montalban-Lopez, M., et al.
    • Journal Title

      Nat. Prod. Rep.

      Volume: 38 Issue: 1 Pages: 130-239

    • DOI

      10.1039/d0np00027b

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Promiscuous Enzymes Cooperate at the Substrate Level En Route to Lactazole A2020

    • Author(s)
      Vinogradov Alexander A.、Shimomura Morito、Kano Naokazu、Goto Yuki、Onaka Hiroyasu、Suga Hiroaki
    • Journal Title

      Journal of the American Chemical Society

      Volume: 142 Issue: 32 Pages: 13886-13897

    • DOI

      10.1021/jacs.0c05541

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] Minimal lactazole scaffold for in vitro thiopeptide bioengineering2020

    • Author(s)
      Vinogradov Alexander A.、Shimomura Morito、Goto Yuki、Ozaki Taro、Asamizu Shumpei、Sugai Yoshinori、Suga Hiroaki、Onaka Hiroyasu
    • Journal Title

      Nature Communications

      Volume: 11 Issue: 1 Pages: 2272-2272

    • DOI

      10.1038/s41467-020-16145-4

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Accurate Broadcasting of Substrate Fitness for Lactazole Biosynthetic Pathway from Reactivity-Profiling mRNA Display2020

    • Author(s)
      Vinogradov Alexander A.、Nagai Emiko、Chang Jun Shi、Narumi Kakeru、Onaka Hiroyasu、Goto Yuki、Suga Hiroaki
    • Journal Title

      Journal of the American Chemical Society

      Volume: 142 Issue: 48 Pages: 20329-20334

    • DOI

      10.1021/jacs.0c10374

    • Related Report
      2020 Research-status Report
    • Peer Reviewed
  • [Journal Article] A Macrocyclic Peptide Library with a Structurally Constrained Cyclopropane‐containing Building Block Leads to Thiol‐independent Inhibitors of Phosphoglycerate Mutase2020

    • Author(s)
      Okuma Rika、Kuwahara Tomoki、Yoshikane Takafumi、Watanabe Mizuki、Dranchak Patricia、Inglese James、Shuto Satoshi、Goto Yuki、Suga Hiroaki
    • Journal Title

      Chemistry - An Asian Journal

      Volume: 15 Issue: 17 Pages: 2631-2636

    • DOI

      10.1002/asia.202000700

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Human trans-editing enzyme displays tRNA acceptor-stem specificity and relaxed amino acid selectivity2020

    • Author(s)
      Vargas-Rodriguez, O., Bakhtina, M., McGowan, D., Abid, J., Goto, Y., Suga, H., Musier-Forsyth, K.
    • Journal Title

      J. Biol. Chem.

      Volume: 295 Issue: 48 Pages: 16180-16190

    • DOI

      10.1074/jbc.ra120.015981

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Chemoenzymatic Posttranslational Modification Reactions for the Synthesis of Ψ[CH 2 NH]‐Containing Peptides2020

    • Author(s)
      Kato Yasuharu、Kuroda Tomohiro、Huang Yichao、Ohta Risa、Goto Yuki、Suga Hiroaki
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 59 Issue: 2 Pages: 684-688

    • DOI

      10.1002/anie.201910894

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Exploring the Post-translational Enzymology of PaaA by mRNA Display2020

    • Author(s)
      Fleming, S. R., Himes, P. M., Ghodge, S. V., Goto, Y., Suga, H., Bowers, A. A.
    • Journal Title

      J Am Chem Soc

      Volume: 142 Issue: 11 Pages: 5024-5028

    • DOI

      10.1021/jacs.0c01576

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Improved Stability of siRNA-Loaded Lipid Nanoparticles Prepared with a PEG-Monoacyl Fatty Acid Facilitates Ligand-Mediated siRNA Delivery2020

    • Author(s)
      Sakurai, Y., Mizumura, W., Ito, K., Iwasaki, K., Katoh, T., Goto, Y., Suga, H., Harashima, H.
    • Journal Title

      Mol Pharm

      Volume: 17 Issue: 4 Pages: 1397-1404

    • DOI

      10.1021/acs.molpharmaceut.0c00087

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Ribosomal Formation of Thioamide Bonds in Polypeptide Synthesis2019

    • Author(s)
      Maini Rumit、Kimura Hiroyuki、Takatsuji Ryo、Katoh Takayuki、Goto Yuki、Suga Hiroaki
    • Journal Title

      Journal of the American Chemical Society

      Volume: 141 Issue: 51 Pages: 20004-20008

    • DOI

      10.1021/jacs.9b11097

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Meeting Peptides in Kyoto2019

    • Author(s)
      Futaki, S., Matsuzaki, K., Goto, Y.
    • Journal Title

      Chembiochem

      Volume: 20 Issue: 16 Pages: 2015-2016

    • DOI

      10.1002/cbic.201900456

    • Related Report
      2019 Research-status Report
  • [Journal Article] Generation of non-standard macrocyclic peptides specifically binding TSC-22 homologous gene-12019

    • Author(s)
      Tran STP, Hipolito CJ, Suzuki H, Xie R, Kim Tuyen HD, Dijke PT, Terasaka N, Goto Y, Suga H, Kato M.
    • Journal Title

      Biochem Biophys Res Commun.

      Volume: 516 Issue: 2 Pages: 445-450

    • DOI

      10.1016/j.bbrc.2019.06.035

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] In Vitro Biosynthesis of Peptides Containing Exotic Azoline Analogues2019

    • Author(s)
      Goto Yuki、Suga Hiroaki
    • Journal Title

      ChemBioChem

      Volume: 21 Issue: 1-2 Pages: 84-87

    • DOI

      10.1002/cbic.201900521

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] RiPP生合成経路の改変による天然物ペプチドの人工誘導体の合成2019

    • Author(s)
      後藤佑樹
    • Journal Title

      ペプチド創薬の最前線, シーエムシー出版

      Volume: n/a

    • Related Report
      2019 Research-status Report
  • [Journal Article] ケミカルバイオロジー2.02019

    • Author(s)
      三好大輔, 山東信介, 清中茂樹, 花岡健二郎, 後藤佑樹
    • Journal Title

      現代化学

      Volume: 581 Pages: 18-23

    • Related Report
      2019 Research-status Report
  • [Journal Article] RiPP生合成経路の改変による人工ペプチド生産2019

    • Author(s)
      後藤 佑樹、井上 澄香、菅 裕明
    • Journal Title

      Farumashia

      Volume: 55 Issue: 7 Pages: 662-667

    • DOI

      10.14894/faruawpsj.55.7_662

    • NAID

      130007671606

    • ISSN
      0014-8601, 2189-7026
    • Related Report
      2019 Research-status Report
  • [Presentation] Artificial in vitro biosynthesis for backbone-modified peptides2020

    • Author(s)
      Yuki Goto
    • Organizer
      7th FIP Pharmaceutical Sciences World Congress (PSWC2020 Virtual)
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Artificial in vitro biosynthesis for backbone-modified peptides2020

    • Author(s)
      Yuki Goto
    • Organizer
      6th International Symposium on Middle Molecular Strategy (ISMMS-6)
    • Related Report
      2020 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] One-pot saturation mutagenesis of substrate peptides of posttranslationally modifying enzymes2019

    • Author(s)
      Yuki Goto, Haruka Takeue, Yamato Komatsu, Alexander A. Vinogradov, Hiroaki Suga
    • Organizer
      第56回ペプチド討論会
    • Related Report
      2019 Research-status Report
  • [Presentation] ペプチド薬剤を作る人工生合成システム2019

    • Author(s)
      後藤佑樹
    • Organizer
      第9回 CSJ化学フェスタ2019 究極の化学がここにある!~自然に学び自然に迫る触媒デザイン~
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] 試験管内人工生合成系で擬天然物を創る2019

    • Author(s)
      後藤佑樹
    • Organizer
      理研 Chemical Probe 第二回合同合宿セミナー
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] 試験管内人工生合成系で擬天然物ペプチドを創る2019

    • Author(s)
      後藤佑樹
    • Organizer
      第71回日本生物工学会大会 生合成工学における有用生体機能分子の次世代創製技術
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] 試験管内人工生合成系で擬天然物ペプチドを創る2019

    • Author(s)
      後藤佑樹
    • Organizer
      日本遺伝学会第91回大会 WS7 再構成系におけるゲノムの構築・複製・動態
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] Artificial in vitro biosynthesis for elaboration of pseudo-natural peptides2019

    • Author(s)
      Yuki Goto
    • Organizer
      10th RSC-CSJ Joint Symposium _ Chemistry for Complex Biological Systems _
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] 化学的骨格変換反応による主鎖修飾ペプチドの翻訳合成2019

    • Author(s)
      後藤 佑樹、黒田 知宏、堤見 遥、加藤 保治、菅 裕明
    • Organizer
      第13回バイオ関連化学シンポジウム
    • Related Report
      2019 Research-status Report
  • [Presentation] プレニル化擬天然ペプチドをつくる2019

    • Author(s)
      後藤佑樹
    • Organizer
      細胞構成研究会2019
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] 試験管内人工生合成系で擬天然物をつくる2019

    • Author(s)
      後藤佑樹
    • Organizer
      第7回慶應有機化学若手シンポジウム
    • Related Report
      2019 Research-status Report
    • Invited
  • [Presentation] One-pot saturation mutagenesis of RiPP precursor peptides2019

    • Author(s)
      Yuki Goto
    • Organizer
      First International RiPPs Conference 2019
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research / Invited

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Published: 2019-07-04   Modified: 2023-12-25  

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