• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Encapsulating metabolic enzymes spatially organized on a nanoscaffold in an artificial compartment

Research Project

Project/Area Number 17H01213
Research Category

Grant-in-Aid for Scientific Research (A)

Allocation TypeSingle-year Grants
Section一般
Research Field Bio-related chemistry
Research InstitutionKyoto University

Principal Investigator

MORII TAKASHI  京都大学, エネルギー理工学研究所, 教授 (90222348)

Project Period (FY) 2017-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥43,810,000 (Direct Cost: ¥33,700,000、Indirect Cost: ¥10,110,000)
Fiscal Year 2020: ¥10,530,000 (Direct Cost: ¥8,100,000、Indirect Cost: ¥2,430,000)
Fiscal Year 2019: ¥10,660,000 (Direct Cost: ¥8,200,000、Indirect Cost: ¥2,460,000)
Fiscal Year 2018: ¥10,660,000 (Direct Cost: ¥8,200,000、Indirect Cost: ¥2,460,000)
Fiscal Year 2017: ¥11,960,000 (Direct Cost: ¥9,200,000、Indirect Cost: ¥2,760,000)
Keywords人工代謝経路 / DNAナノ構造体 / 人工コンパートメント / 分子コンビナート / ナノリポソーム / コンパートメント / 核酸関連化学 / タンパク質・酵素化学 / DNAオリガミ / リポソーム
Outline of Final Research Achievements

The efficient transfer of intermediates from one enzyme to the other by spatial organization of enzyme molecules, as found in the compartments, is believed to be the key feature for well-organized flow of metabolites. The protein assembly on DNA scaffold is an ideal system to study the reaction of enzymes in various arrangements. We have developed a modular adaptor to locate an enzyme of interest at the specific position of DNA scaffold. By taking advantages of the highly orthogonal reaction of our modular adaptors, enzymes were successfully located in defined spatial arrangements on 2D or 3D DNA nanoscaffolds to construct artificial metabolic pathways. Such artificial systems enabled us to discover a novel mechanism to enhance the catalytic activity of enzyme. The artificial metabolic pathway on DNA nanoscaffold was encapsulated in nanoliposome. such a new system accelerates further applications of spatially well-defined enzyme assemblies in bioenergy systems and diagnostics.

Academic Significance and Societal Importance of the Research Achievements

生体内代謝反応では、数多くの化学反応が同時に、副反応を限りなく抑えて進行する。このような多段階の反応が並行、かつ選択的に進行する物質変換法は、現在の有機合成化学でもまだ開拓されていない。細胞内代謝経路に関与する酵素群は、決められた小器官中の区画(コンパートメント)で空間的に近接した酵素組織体を形成して、多段階反応を効率よく進行させる。この細胞内物質変換系を細胞の外で実現できれば、高効率に多段階の物質変換をおこなう「分子コンビナート」、さらにナノ空間に分子コンビナートを内包した「複合触媒コンパートメント」が実現し、持続可能社会での環境負荷の少ない工業プロセスに貢献できる。

Report

(5 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Annual Research Report
  • 2018 Annual Research Report
  • 2017 Annual Research Report
  • Research Products

    (52 results)

All 2021 2020 2019 2018 2017 Other

All Journal Article (17 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 17 results,  Open Access: 5 results) Presentation (30 results) (of which Int'l Joint Research: 15 results,  Invited: 5 results) Book (1 results) Remarks (4 results)

  • [Journal Article] Evaluation of the role of the DNA surface for enhancing the activity of scaffolded enzymes2021

    • Author(s)
      Lin Peng、Dinh Huyen、Morita Yuki、Zhang Zhengxiao、Nakata Eiji、Kinoshita Masahiro、Morii Takashi
    • Journal Title

      Chemical Communications

      Volume: 57 Issue: 32 Pages: 3925-3928

    • DOI

      10.1039/d1cc00276g

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Inositol 1,4,5-trisphosphate 3-kinase B promotes Ca2+ mobilization and the inflammatory activity of dendritic cells2021

    • Author(s)
      Marongiu Laura、Morii Takashi、Granucci Francesca, et al
    • Journal Title

      Science Signaling

      Volume: 14 Issue: 676

    • DOI

      10.1126/scisignal.aaz2120

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Fluorescence detection of the nitric oxide-induced structural change at the putative nitric oxide sensing segment of TRPC52020

    • Author(s)
      Tajima Shunsuke、Nakata Eiji、Sakaguchi Reiko、Saimura Masayuki、Mori Yasuo、Morii Takashi
    • Journal Title

      Bioorganic & Medicinal Chemistry

      Volume: 28 Issue: 8 Pages: 115430-115430

    • DOI

      10.1016/j.bmc.2020.115430

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Receptor-based fluorescent sensors constructed from ribonucleopeptide2020

    • Author(s)
      Nakano Shun、Konishi Hiroaki、Morii Takashi
    • Journal Title

      Methods in Enzymology

      Volume: 641 Pages: 183-223

    • DOI

      10.1016/bs.mie.2020.04.041

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Enhanced enzymatic activity exerted by a packed assembly of a single type of enzyme2020

    • Author(s)
      Dinh Huyen、Nakata Eiji、Mutsuda-Zapater Kaori、Saimura Masayuki、Kinoshita Masahiro、Morii Takashi
    • Journal Title

      Chemical Science

      Volume: 11 Issue: 34 Pages: 9088-9100

    • DOI

      10.1039/d0sc03498c

    • Related Report
      2020 Annual Research Report 2019 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Cryogenic Far-Field Fluorescence Nanoscopy: Evaluation with DNA Origami2020

    • Author(s)
      Furubayashi Taku、Ishida Keita、Nakata Eiji、Morii Takashi、Naruse Kanta、Matsushita Michio、Fujiyoshi Satoru
    • Journal Title

      The Journal of Physical Chemistry B

      Volume: 124 Issue: 35 Pages: 7525-7536

    • DOI

      10.1021/acs.jpcb.0c04721

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Rational design of a DNA sequence specific modular protein tag by tuning the alkylation kinetics2019

    • Author(s)
      T.M. Nguyen, E. Nakata, Z. Zhang, M. Saimura, H. Dinh, T. Morii
    • Journal Title

      Chemical Science

      Volume: 10 Issue: 40 Pages: 9315-9325

    • DOI

      10.1039/c9sc02990g

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Protein adaptors assemble functional proteins on DNA scaffolds2019

    • Author(s)
      T.D. Ngo, Tien, N. Huyen, T.M. Nguyen, F.F. Liew, E. Nakata, T. Morii
    • Journal Title

      Chemical Communications

      Volume: 27 Issue: 83 Pages: 12428-12446

    • DOI

      10.1039/c9cc04661e

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Reaction of ribulose biphosphate carboxylase/oxygenase assembled on a DNA scaffold2019

    • Author(s)
      H. Dinh, E. Nakata, P. Lin, M. Saimura, H. Ashida, T. Morii
    • Journal Title

      Bioorganic & Medicinal Chemistry

      Volume: 27 Issue: 22 Pages: 115120-115120

    • DOI

      10.1016/j.bmc.2019.115120

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Nanometer Accuracy in Cryogenic Far-Field Localization Microscopy of Individual Molecules2019

    • Author(s)
      Furubayashi Taku、Ishida Keita、Kashida Hiromu、Nakata Eiji、Morii Takashi、Matsushita Michio、Fujiyoshi Satoru
    • Journal Title

      The Journal of Physical Chemistry Letters

      Volume: 10 Issue: 19 Pages: 5841-5846

    • DOI

      10.1021/acs.jpclett.9b02184

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed
  • [Journal Article] DNA binding adaptors to assemble proteins of interest on DNA scaffold2019

    • Author(s)
      Nakata Eiji、Dinh Huyen、Nguyen Thang Minh、Morii Takashi
    • Journal Title

      Methods Enzymol.

      Volume: 617 Pages: 287-322

    • DOI

      10.1016/bs.mie.2018.12.014

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Contribution of Coiled-Coil Assembly to Ca2+/Calmodulin-Dependent Inactivation of TRPC6 Channel and its Impacts on FSGS-Associated Phenotypes2019

    • Author(s)
      Polat Onur K.、Uno Masatoshi、Maruyama Terukazu、Tran Ha Nam、Imamura Kayo、Wong Chee Fah、Sakaguchi Reiko、Ariyoshi Mariko、Itsuki Kyohei、Ichikawa Jun、Morii Takashi、Shirakawa Masahiro、Inoue Ryuji、Asanuma Katsuhiko、Reiser Jochen、Tochio Hidehito、Mori Yasuo、Mori Masayuki X.
    • Journal Title

      Journal of the American Society of Nephrology

      Volume: 30 Issue: 9 Pages: 1587-1603

    • DOI

      10.1681/asn.2018070756

    • Related Report
      2019 Annual Research Report 2018 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Covalent Bond Formation by Modular Adaptors to Locate Multiple Enzymes on a DNA Scaffold.2019

    • Author(s)
      Eiji Nakata, Shun Nakano, Arivazhagan Rajendran, Takashi Morii
    • Journal Title

      Kinetic Control in Synthesis and Self-Assembly

      Volume: 1 Pages: 163-183

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Highly selective dual sensing of ATP and ADP using fluorescent ribonucleopeptide sensors2019

    • Author(s)
      Nakano Shun、Shimizu Musashi、Dinh Huyen、Morii Takashi
    • Journal Title

      Chemical Communications

      Volume: 55 Issue: 11 Pages: 1611-1614

    • DOI

      10.1039/c8cc09934k

    • Related Report
      2018 Annual Research Report
    • Peer Reviewed
  • [Journal Article] DNA Origami Scaffolds as Templates for Functional Tetrameric Kir3 K+ Channels.2018

    • Author(s)
      T. Kurokawa, S. Kiyonaka, E. Nakata, M. Endo, S. Koyama, E. Mori, N.H. Tran, H. Dinh, Y. Suzuki, K. Hidaka, M. Kawata, C. Sato, H. Sugiyama, T. Morii, Y. Mori
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 130 Issue: 10 Pages: 2616-2621

    • DOI

      10.1002/ange.201709982

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Nucleic acids-templated enzyme cascades2017

    • Author(s)
      A. Rajendran, E. Nakata, S. Nakano, T. Morii
    • Journal Title

      ChemBioChem

      Volume: 18 Issue: 8 Pages: 696-716

    • DOI

      10.1002/cbic.201600703

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Design of Modular Protein-Tags for the Orthogonal Covalent Bond Formation at Specific DNA Sequences2017

    • Author(s)
      T.M. Nguyen, E. Nakata, M. Saimura, H. Dinh, T. Morii
    • Journal Title

      Journal of the American Chemical Society

      Volume: 139 Issue: 25 Pages: 8487-8496

    • DOI

      10.1021/jacs.7b01640

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Presentation] Chemistry of Spatially Organized Enzymes2021

    • Author(s)
      森井 孝
    • Organizer
      Asian Chemical Biology Initiative 2021 Online Meeting
    • Related Report
      2020 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Reaction of enzyme cascades assembled in 3D DNA nanostructure2019

    • Author(s)
      LIN, Peng; DINH, Huyen; THANG, Minh Nguyen; NAKATA, Eiji; MORII, Takashi
    • Organizer
      日本化学会第99春季年会
    • Related Report
      2018 Annual Research Report
  • [Presentation] Tuning the reactivity of crosslink formation for sequence-selective DNA-protein conjugation2019

    • Author(s)
      ZHANG, Zhengxiao; NAKATA, Eiji; THANG, Nguyen Minh; MORII, Takashi
    • Organizer
      日本化学会第99春季年会
    • Related Report
      2018 Annual Research Report
  • [Presentation] DNAオリガミを鋳型にしたリポソームの形成2019

    • Author(s)
      小西宏明・DINH Huyen・脇坂智彦・中田栄司・仲野瞬・森井 孝
    • Organizer
      日本化学会第99春季年会
    • Related Report
      2018 Annual Research Report
  • [Presentation] Design of sequence specific modular adaptors by tuning the reactivity of protein-tag substrate2018

    • Author(s)
      張 正宵・中田 栄司・Thang Minh Nguyen・森井 孝
    • Organizer
      第12回バイオ関連化学シンポジウム
    • Related Report
      2018 Annual Research Report
  • [Presentation] DNAナノ構造体を鋳型にしたリポソーム形成2018

    • Author(s)
      小西 宏明・DINH Huyen・中田 栄司・仲野 瞬・森井 孝
    • Organizer
      第12回バイオ関連化学シンポジウム
    • Related Report
      2018 Annual Research Report
  • [Presentation] Integration of Topologically-Interlocked Functional Structures With a DNA Nanostructure2018

    • Author(s)
      A. Rajendran, S.-J. Park, E. Nakata, Y. Kwon, T. Morii
    • Organizer
      第12回バイオ関連化学シンポジウム
    • Related Report
      2018 Annual Research Report
  • [Presentation] Chemistry of spatially organized enzymes2018

    • Author(s)
      T. Morii
    • Organizer
      The 5th SKL Symposium on Chemical Biology & Drug Discovery
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Chemistry of Enzymes Assembled on a DNA scaffold2018

    • Author(s)
      T. Morii
    • Organizer
      Asia 3 Roundtable of Nucleic Acids
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] DNA Binding Adaptors for Locating Multiple Enzymes on DNA scaffold Scaffold2018

    • Author(s)
      Eiji Nakata, Thang Minh Nguyen, Zhengxiao Zhang, Huyen Dinh, Peng Lin, Masayuki Saimura, Takashi Morii
    • Organizer
      The 45th International Symposium on Nucleic Acids Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Assembling cascade enzymes on a 3D DNA nanostructure2018

    • Author(s)
      Peng LIN, Huyen Dinh, Nguyen Minh Thang, Eiji Nakata, Takashi Morii
    • Organizer
      The 45th International Symposium on Nucleic Acids Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Nanoliposome enclosing proteins on DNA scaffol2018

    • Author(s)
      Hiroaki Konishi, Huyen Dinh, Tomohiko Wakisaka, Eiji Nakata, Shun Nakano, Takashi Morii
    • Organizer
      The 45th International Symposium on Nucleic Acids Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] DNA Catenane and Rotaxane Inside a DNA Origami Frame2018

    • Author(s)
      Arivazhagan Rajendran, Seo-jeong Park, Eiji Nakata, Youngjoo Kwon, Takashi Morii
    • Organizer
      The 45th International Symposium on Nucleic Acids Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Design of sequence specific modular adaptors by tuning the reactivity of protein-tag2018

    • Author(s)
      Zhengxiao Zhang, Eiji Nakata, Thang Minh Nguyen, Takashi Morii
    • Organizer
      The 45th International Symposium on Nucleic Acids Chemistry
    • Related Report
      2018 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Efficiency of The Enzyme Cascade Reaction on a DNA Scaffold2018

    • Author(s)
      P. Lin, T. Nguyen, H. Dinh, E. Nakata, T. Morii
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] Reaction of Carbonic Anhydrase assembled on DNA scaffold2018

    • Author(s)
      H. Dinh, E. Nakata, M. Kinoshita, T. Morii
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] Supramolecular Assemblies of Mechanically Interlocked Components Inside a DNA Origami Frame2018

    • Author(s)
      A. Rajendran, S.J. Park, E. Nakata, Y. Kwon, T. Morii
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] Sequence Specific Modular Adaptors for Orthogonal Location of Multiple Enzymes on a DNA scaffold2018

    • Author(s)
      T. M. Nguyen, E. Nakata, M. Saimura, T. Morii
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] DNAナノ構造体を鋳型にしたナノリポソーム2018

    • Author(s)
      小西宏明,Dinh Huyen,中田栄司,仲野 瞬,森井孝
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] 多数のタンパク質を配置したDNAナノ構造体の構築2018

    • Author(s)
      中田栄司,Dinh Huyen,才村正幸,森井 孝
    • Organizer
      日本化学会第98春季年会2018
    • Related Report
      2017 Annual Research Report
  • [Presentation] 直交性を有するモジュール型アダプターによる複数の酵素を配置した分子スイッチボード2017

    • Author(s)
      中田栄司,Nguyen Minh Thang,才村正幸,Dinh Huyen,森井 孝
    • Organizer
      第11回バイオ関連化学シンポジウム
    • Related Report
      2017 Annual Research Report
  • [Presentation] Activity of the assembled enzyme on DNA scaffold2017

    • Author(s)
      H. Dinh, E. Nakata, T. Morii
    • Organizer
      第11回バイオ関連化学シンポジウム
    • Related Report
      2017 Annual Research Report
  • [Presentation] Assembly of DNA Rotaxane and Catenane Inside a DNA Origami Frame2017

    • Author(s)
      A. Rajendran, S.-J. Park, E. Nakata, Y. Kwon, T. Morii
    • Organizer
      第11回バイオ関連化学シンポジウム
    • Related Report
      2017 Annual Research Report
  • [Presentation] Chemistry of spatially organized biological molecules2017

    • Author(s)
      T. Morii
    • Organizer
      Asian Chemical Biology Initiative
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Assembling Enzymes on a DNA scaffold by modular protein-tag2017

    • Author(s)
      T. Morii
    • Organizer
      Asian 3 Roundtable on Nucleic Acids
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Orthogonal Modular Adaptors to Locate Three Enzymes for Cascade Reaction on DNA Scaffold2017

    • Author(s)
      T. M. Nguyen, E. Nakata, M. Saimura, H. Dinh, T. Morii
    • Organizer
      nternational Symposium on Nucleic Acids Chemistry /The 1st Annual Meeting of Japan Society of Nucleic Acids Chemistry
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Reaction of enzymes in the ordered assembly states on DNA nanostructures2017

    • Author(s)
      H. Dinh, E. Nakata, T. Morii
    • Organizer
      International Symposium on Nucleic Acids Chemistry /The 1st Annual Meeting of Japan Society of Nucleic Acids Chemistry
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] DNA Binding Adaptors to Locate Multiple Enzymes on DNA Scaffold2017

    • Author(s)
      E. Nakata, T. Morii
    • Organizer
      The 2nd International Symposium on Biofunctional Chemistry (ISBC2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Assembly of multiple enzymes on a DNA scaffold2017

    • Author(s)
      T. M. Nguyen, E. Nakata, M. Saimura, H. Dinh, T. Morii
    • Organizer
      The 2nd International Symposium on Biofunctional Chemistry (ISBC2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] DNA rotaxane and catenane inside a DNA nanostructure2017

    • Author(s)
      A. Rajendran, S-J. Park, E. Nakata, Y. Kwon, T. Morii
    • Organizer
      The 2nd International Symposium on Biofunctional Chemistry (ISBC2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Book] 核酸科学ハンドブック2020

    • Author(s)
      日本核酸化学会監修、杉本 直己編、森井 孝、他著
    • Total Pages
      576
    • Publisher
      講談社
    • ISBN
      9784065207864
    • Related Report
      2020 Annual Research Report
  • [Remarks] 京都大学エネルギー理工学研究所 生物機能化学研究分野 ホームページ

    • URL

      http://www.iae.kyoto-u.ac.jp/material/index.html

    • Related Report
      2018 Annual Research Report 2017 Annual Research Report
  • [Remarks] 酵素を1分子ずつナノメートルの精度で狙い通りに並べる

    • URL

      http://www.kyoto-u.ac.jp/ja/research/research_results/2017/170518_2.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] DNAオリガミを足場にしたイオンチャネルの集積状態制御

    • URL

      http://www.iae.kyoto-u.ac.jp/new-iae/NewsRelease/JP/2018/02/01-145056.html

    • Related Report
      2017 Annual Research Report
  • [Remarks] 酵素を1分子ずつナノメートルの精度で狙い通りに並べる技術を開発

    • URL

      http://www.iae.kyoto-u.ac.jp/new-iae/NewsRelease/JP/2017/06/01-162221.html

    • Related Report
      2017 Annual Research Report

URL: 

Published: 2017-04-28   Modified: 2022-12-28  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi