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Tokunaga Yuuji  徳永 裕二

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Tokunaga Yuji  徳永 裕二

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Researcher Number 80713354
Other IDs
Affiliation (Current) 2025: 東京大学, 大学院薬学系研究科(薬学部), 助教
Affiliation (based on the past Project Information) *help 2021 – 2024: 東京大学, 大学院薬学系研究科(薬学部), 助教
2021: 東京大学, 大学院薬学系研究科(薬学部 ), 助教
2017 – 2021: 国立研究開発法人産業技術総合研究所, 生命工学領域, 研究員
2016: 国立研究開発法人産業技術総合研究所, 創薬分子プロファイリング研究センター, 研究員
Review Section/Research Field
Principal Investigator
Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related / Structural biochemistry / Transformative Research Areas, Section (III)
Except Principal Investigator
Medium-sized Section 47:Pharmaceutical sciences and related fields / Basic Section 43040:Biophysics-related / Basic Section 45010:Genetics-related / Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
Keywords
Principal Investigator
構造平衡 / 立体構造 / 溶液NMR法 / シグナル伝達 / キナーゼ / リン酸化 / 硫黄運搬 / システイン残基 / タンパク質 / 核磁気共鳴法 … More / p38 / ストレス応答 / pH / 核磁気共鳴(NMR)法 / MAPキナーゼ / リン酸化・脱リン酸化 / 核磁気共鳴NMR / 立体構造変化 / 過硫化・多硫化 / tRNA硫黄修飾 / 核磁気共鳴(NMR) / 過硫化/パーサルファイド化 / レドックス修飾 / 膜貫通領域 / 膜タンパク質 / レッドクス修飾 / 硫黄化修飾 / 重水素化 / 高分子量タンパク質 / 硫黄修飾 / システイン / NMR / 高分子量観測 / 核磁気共鳴 / tRNA修飾 / 過硫化 / 溶液NMR / 細胞内情報伝達 / 分子間相互作用 / 基質選択性 / ダイナミクス / 基質特異性 / MAPキナーゼp38 / pH依存性 / タンパク質キナーゼ / 構造生物学 / 酵素ー基質親和性 / His残基プロトン化 / 細胞応答 / 基質選別 … More
Except Principal Investigator
NMR / 創薬基盤技術 / 創薬 / dielectric relaxation / RNA polymerase / hydration / fidelity / sub-THz / 水素結合ダイナミクス / アボーティブ転写 / ポージング / 転写開始 / RNAポリメラーゼ / 遺伝情報 / 転写調節 / テラヘルツ光 / 反復DNA配列 / 水 / 反復パターン / テラヘルツ / 水素結合 / 水和 / 溶液NMR / 水素結合ネットワーク / イミノプロトン / 反復配列 / 転写因子 / DNA / サブテラヘルツ / クリプトサイト / タンパク質 / 動的構造 / 動的相互作用 / 薬物 / 創薬作用点 / 薬剤設計 / 運動性 / 立体構造 / 膜透過活性 / モダリティ / 膜透過 / 中分子 / バイオ医薬 / 測定技術開発 / 非侵襲的 / 非破壊的 / 製剤条件 / バイオ医薬品 / 高次構造解析 / 創薬科学 / 高分子バイオ医薬 Less
  • Research Projects

    (10 results)
  • Research Products

    (30 results)
  • Co-Researchers

    (6 People)
  •  Contribution of hydration in transcription fidelity: Understanding the molecular basis and its regulation by subterahertz waves.

    • Principal Investigator
      今清水 正彦
    • Project Period (FY)
      2024 – 2026
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Review Section
      Basic Section 43040:Biophysics-related
    • Research Institution
      National Institute of Advanced Industrial Science and Technology
  •  NMR analyses of structural dynamics underlying kinase signal regulation via phosphorylation and dephosphorylationPrincipal Investigator

    • Principal Investigator
      徳永 裕二
    • Project Period (FY)
      2023 – 2025
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Review Section
      Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
    • Research Institution
      The University of Tokyo
  •  Development of NMR approach for elucidating structural mechanisms of functional regulation of proteins via persulfidationPrincipal Investigator

    • Principal Investigator
      徳永 裕二
    • Project Period (FY)
      2022 – 2023
    • Research Category
      Grant-in-Aid for Transformative Research Areas (A)
    • Review Section
      Transformative Research Areas, Section (III)
    • Research Institution
      The University of Tokyo
  •  Development of basic strategy to structurally evaluate the membrane permeation activity of middle-size molecules

    • Principal Investigator
      Takeuchi Koh
    • Project Period (FY)
      2020 – 2021
    • Research Category
      Grant-in-Aid for Challenging Research (Exploratory)
    • Review Section
      Medium-sized Section 47:Pharmaceutical sciences and related fields
    • Research Institution
      The University of Tokyo
      National Institute of Advanced Industrial Science and Technology
  •  Structure and dynamics based drug development to obtain highly active compounds

    • Principal Investigator
      Takeuchi Koh
    • Project Period (FY)
      2020 – 2022
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Review Section
      Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
    • Research Institution
      The University of Tokyo
      National Institute of Advanced Industrial Science and Technology
  •  Revisiting genetic information: introducing the concept of the collective dynamics of DNA and water

    • Principal Investigator
      Imashimizu Masahiko
    • Project Period (FY)
      2020 – 2022
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Review Section
      Basic Section 45010:Genetics-related
    • Research Institution
      National Institute of Advanced Industrial Science and Technology
  •  Redox sensing by membrane proteins via cysteine residues in the TM region as studied by using solution NMRPrincipal Investigator

    • Principal Investigator
      Tokunaga Yuji
    • Project Period (FY)
      2019 – 2021
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Review Section
      Basic Section 47020:Pharmaceutical analytical chemistry and physicochemistry-related
    • Research Institution
      The University of Tokyo
      National Institute of Advanced Industrial Science and Technology
  •  NMR method to obtain structural fingerprints of an intact monoclonal antibody acquired under formulated storage conditions

    • Principal Investigator
      Takeuchi Koh
    • Project Period (FY)
      2018 – 2019
    • Research Category
      Grant-in-Aid for Challenging Research (Exploratory)
    • Review Section
      Medium-sized Section 47:Pharmaceutical sciences and related fields
    • Research Institution
      National Institute of Advanced Industrial Science and Technology
  •  Structural basis for the selection mechanism of specific kinase signaling pathways via stimuli-dependent modulations of the functional equilibriumPrincipal Investigator

    • Principal Investigator
      Tokunaga Yuji
    • Project Period (FY)
      2017 – 2018
    • Research Category
      Grant-in-Aid for Young Scientists (B)
    • Research Field
      Structural biochemistry
    • Research Institution
      National Institute of Advanced Industrial Science and Technology
  •  機能的構造平衡のNMR解析による刺激に適合したキナーゼシグナル選別機構の解明Principal Investigator

    • Principal Investigator
      徳永 裕二
    • Project Period (FY)
      2016 – 2017
    • Research Category
      Grant-in-Aid for Research Activity Start-up
    • Research Field
      Structural biochemistry
    • Research Institution
      National Institute of Advanced Industrial Science and Technology

All 2023 2022 2021 2020 2019 2018 2017 2016

All Journal Article Presentation

  • [Journal Article] Nonthermal acceleration of protein hydration by sub-terahertz irradiation2023

    • Author(s)
      Sugiyama Jun-ichi、Tokunaga Yuji、Hishida Mafumi、Tanaka Masahito、Takeuchi Koh、Satoh Daisuke、Imashimizu Masahiko
    • Journal Title

      Nature Communications

      Volume: 14 Issue: 1 Pages: 2825-2825

    • DOI

      10.1038/s41467-023-38462-0

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-22K18374, KAKENHI-PLANNED-19H05717, KAKENHI-PUBLICLY-22H04566, KAKENHI-PROJECT-23K27310, KAKENHI-PROJECT-20H03298
  • [Journal Article] The oxidative folding of nascent polypeptides provides electrons for reductive reactions in the ER2023

    • Author(s)
      Uegaki Kaiku、Tokunaga Yuji、Inoue Michio、Takashima Seiji、Inaba Kenji、Takeuchi Koh、Ushioda Ryo、Nagata Kazuhiro
    • Journal Title

      Cell Reports

      Volume: 42 Issue: 7 Pages: 112742-112742

    • DOI

      10.1016/j.celrep.2023.112742

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-22K18374, KAKENHI-PROJECT-21H02914, KAKENHI-PROJECT-23K23885, KAKENHI-PLANNED-21H05253, KAKENHI-PLANNED-21H05268, KAKENHI-PUBLICLY-22H05558, KAKENHI-PROJECT-21H04758, KAKENHI-PROJECT-23K27310
  • [Journal Article] Repetitive DNA symmetry elements negatively regulate gene expression in embryonic stem cells2022

    • Author(s)
      Mellul Meir、Lahav Shlomtzion、Imashimizu Masahiko、Tokunaga Yuji、Lukatsky David B.、Ram Oren
    • Journal Title

      Biophysical Journal

      Volume: 121 Issue: 16 Pages: 3126-3135

    • DOI

      10.1016/j.bpj.2022.07.011

    • Peer Reviewed / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Journal Article] Nonthermal excitation effects mediated by subterahertz radiation on hydrogen exchange in ubiquitin2021

    • Author(s)
      Tokunaga Yuji、Tanaka Masahito、Iida Hitoshi、Kinoshita Moto、Tojima Yuya、Takeuchi Koh、Imashimizu Masahiko
    • Journal Title

      Biophysical Journal

      Volume: 120 Issue: 12 Pages: 1-8

    • DOI

      10.1016/j.bpj.2021.04.013

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-18K18731, KAKENHI-PROJECT-18H02393, KAKENHI-PROJECT-20H03298
  • [Journal Article] Function-Related Dynamics in Multi-Spanning Helical Membrane Proteins Revealed by Solution NMR2021

    • Author(s)
      Takeuchi Koh、Kofuku Yutaka、Imai Shunsuke、Ueda Takumi、Tokunaga Yuji、Toyama Yuki、Shiraishi Yutaro、Shimada Ichio
    • Journal Title

      Membranes

      Volume: 11 Issue: 8 Pages: 604-604

    • DOI

      10.3390/membranes11080604

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-20K21494, KAKENHI-PUBLICLY-20H04722, KAKENHI-PROJECT-18H02393, KAKENHI-PROJECT-21H02619, KAKENHI-PROJECT-20K21473, KAKENHI-PROJECT-17H06097, KAKENHI-PUBLICLY-21H05509, KAKENHI-PROJECT-20H03375, KAKENHI-PROJECT-20H03378, KAKENHI-PROJECT-23K21289
  • [Journal Article] Conformational Plasticity of Cyclic Ras‐Inhibitor Peptides Defines Cell Permeabilization Activity2021

    • Author(s)
      Takeuchi Koh、Misaki Imai、Tokunaga Yuji、Fujisaki Miwa、Kamoshida Hajime、Takizawa Takeshi、Hanzawa Hiroyuki、Shimada Ichio
    • Journal Title

      Angewandte Chemie International Edition

      Volume: 60 Issue: 12 Pages: 6567-6572

    • DOI

      10.1002/anie.202016647

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20K21494, KAKENHI-PROJECT-17H06097
  • [Journal Article] Role of NMR in High Ordered Structure Characterization of Monoclonal Antibodies2020

    • Author(s)
      Tokunaga Yuji、Takeuchi Koh
    • Journal Title

      International Journal of Molecular Sciences

      Volume: 22 Issue: 1 Pages: 46-46

    • DOI

      10.3390/ijms22010046

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PUBLICLY-20H04722, KAKENHI-PROJECT-20H03378
  • [Journal Article] Spotlight on the Ballet of Proteins: The Structural Dynamic Properties of Proteins Illuminated by Solution NMR2020

    • Author(s)
      Tokunaga Yuji、Viennet Thibault、Arthanari Haribabu、Takeuchi Koh
    • Journal Title

      International Journal of Molecular Sciences

      Volume: 21 Issue: 5 Pages: 1829-1829

    • DOI

      10.3390/ijms21051829

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-18K19415
  • [Journal Article] Targeting the cryptic sites: NMR-based strategy to improve protein druggability by controlling the conformational equilibrium2020

    • Author(s)
      Mizukoshi Yumiko、Takeuchi Koh、Tokunaga Yuji、Matsuo Hitomi、Imai Misaki、Fujisaki Miwa、Kamoshida Hajime、Takizawa Takeshi、Hanzawa Hiroyuki、Shimada Ichio
    • Journal Title

      Science Advances

      Volume: 6 Issue: 40

    • DOI

      10.1126/sciadv.abd0480

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PUBLICLY-20H04722, KAKENHI-PROJECT-18H02393, KAKENHI-PROJECT-20H03378, KAKENHI-PROJECT-17H06097
  • [Journal Article] Control of Transcription Initiation by Biased Thermal Fluctuations on Repetitive Genomic Sequences2020

    • Author(s)
      Imashimizu Masahiko、Tokunaga Yuji、Afek Ariel、Takahashi Hiroki、Shimamoto Nobuo、Lukatsky David B.
    • Journal Title

      Biomolecules

      Volume: 10 Issue: 9 Pages: 1299-1299

    • DOI

      10.3390/biom10091299

    • Peer Reviewed / Open Access / Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-18K18731, KAKENHI-PROJECT-20H03298
  • [Journal Article] Structural Fingerprints of an Intact Monoclonal Antibody Acquired under Formulated Storage Conditions via 15N Direct Detection Nuclear Magnetic Resonance2020

    • Author(s)
      Tokunaga Yuji、Takeuchi Koh、Okude Junya、Ori Kazutomo、Torizawa Takuya、Shimada Ichio
    • Journal Title

      Journal of Medicinal Chemistry

      Volume: - Issue: 10 Pages: 5360-5366

    • DOI

      10.1021/acs.jmedchem.0c00231

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-19K07040, KAKENHI-PROJECT-18K19415, KAKENHI-PROJECT-18H02393, KAKENHI-PROJECT-17H06097
  • [Journal Article] Forbidden Coherence Transfer of 19F Nuclei to Quantitatively Measure the Dynamics of a CF3-Containing Ligand in Receptor-Bound States2017

    • Author(s)
      Tokunaga Yuji、Takeuchi Koh、Shimada Ichio
    • Journal Title

      Molecules

      Volume: 22 Issue: 9 Pages: 1492-1492

    • DOI

      10.3390/molecules22091492

    • Peer Reviewed / Open Access
    • Data Source
      KAKENHI-PROJECT-17K15083, KAKENHI-PROJECT-17H06097
  • [Presentation] 核磁気共鳴法によるタンパク質の機能制御機構の解析とレドックス系への応用2023

    • Author(s)
      徳永 裕二
    • Organizer
      レドックス R&D 戦略研究会 夏のシンポジウム
    • Data Source
      KAKENHI-PUBLICLY-22H05558
  • [Presentation] 大腸菌由来tRNA硫黄修飾関連タンパク質TusEによる硫黄運搬の構造機構の溶液NMR解析2023

    • Author(s)
      徳永 裕二, 鴫 直樹, 竹内 恒
    • Organizer
      第96回日本生化学会大会
    • Data Source
      KAKENHI-PUBLICLY-22H05558
  • [Presentation] 大腸菌由来tRNA硫黄修飾関連タンパク質TusEによる硫黄運搬の構造機構の溶液NMR解析2022

    • Author(s)
      徳永 裕二, 鴫 直樹, 嶋田 一夫, 竹内 恒
    • Organizer
      第95回日本生化学会大会
    • Data Source
      KAKENHI-PUBLICLY-22H05558
  • [Presentation] An NMR approach for elucidating the mechanism of functional regulation of proteins by persulfidation2022

    • Author(s)
      Yuji Tokunaga, Naoki Shigi, Ichio Shimada, and Koh Takeuchi
    • Organizer
      Redox Week in Sendai 2022
    • Int'l Joint Research
    • Data Source
      KAKENHI-PUBLICLY-22H05558
  • [Presentation] 生体高分子水溶液への非熱的0.1THz励起作用2021

    • Author(s)
      今清水 正彦、杉山 順一、田中 真人、徳永 裕二
    • Organizer
      第15回日本電磁波エネルギー応用学会シンポジウム
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Presentation] Nonthermal Excitation Effects Mediated by Sub-Terahertz Radiation on Biomolecular Hydration Dynamics and Reactions.2021

    • Author(s)
      今清水 正彦、徳永 裕二、田中 真人、杉山 順一
    • Organizer
      第59回日本生物物理学会年会
    • Invited
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Presentation] 細胞透過性を決めるRas阻害環状ペプチドの構造的柔軟性2020

    • Author(s)
      竹内 恒,今井美咲, 徳永裕二,藤崎美和, 鴨志田一, 滝沢 剛, 半沢宏之,嶋田一夫
    • Organizer
      第59回 NMR 討論会
    • Data Source
      KAKENHI-PROJECT-20K21494
  • [Presentation] 15N直接検出NMR法による製剤・保存条件におけるモノクローナル抗体の非破壊的観測2020

    • Author(s)
      徳永裕二、竹内恒、奥出順也、小里一友、鳥澤拓也、嶋田一夫
    • Organizer
      第59回NMR討論会
    • Data Source
      KAKENHI-PROJECT-19K07040
  • [Presentation] 遺伝情報とDNAの物性をつなげる:DNAと水の水素結合ダイナミクスから見た転写調節機能2020

    • Author(s)
      今清水 正彦、徳永 裕二、田中 真人、 高橋弘喜
    • Organizer
      第92回日本遺伝学会大会
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Presentation] テラバイオロジー:テラヘルツ領域の分子運動から生物機能を理解する2020

    • Author(s)
      今清水 正彦、徳永 裕二、田中 真人、保科宏道、竹内 恒
    • Organizer
      第10回 超異分野学会 本大会
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Presentation] Effects of Nonthermal Excitation Mediated by Terahertz Radiation on Biomolecular Dynamics and Reactions2020

    • Author(s)
      今清水 正彦、徳永 裕二、田中 真人、保科宏道、山口裕資、竹内 恒
    • Organizer
      The 8th International Workshop on Far-Infrared Technologies (IW-FIRT 2021)
    • Int'l Joint Research
    • Data Source
      KAKENHI-PROJECT-20H03298
  • [Presentation] ATP濃度減少およびpH低下を伴うストレス条件下におけるMAPK p38αのシグナル伝達最適化機構の溶液NMR法による解明2019

    • Author(s)
      徳永 裕二、竹内 恒、高橋 栄夫、嶋田 一夫
    • Organizer
      第9回定量生物学の会年会
    • Data Source
      KAKENHI-PROJECT-17K15083
  • [Presentation] 15N 直接検出NMR法による高分子量バイオ医薬の非侵襲的観測2018

    • Author(s)
      徳永 裕二,竹内 恒,鳥澤 拓也,奥出 順也,嶋田 一夫
    • Organizer
      第57回NMR討論会
    • Data Source
      KAKENHI-PROJECT-18K19415
  • [Presentation] 溶液NMR法を用いたMAPK p38αによるストレスシグナル伝達最適化の構造機構の解明2018

    • Author(s)
      徳永 裕二、竹内 恒、高橋 栄夫、嶋田 一夫
    • Organizer
      第56回生物物理学会年会
    • Data Source
      KAKENHI-PROJECT-17K15083
  • [Presentation] 溶液 NMR 法を用いた MAPK p38αによるストレス刺激に適合した基質選別機構の解明2017

    • Author(s)
      徳永 裕二
    • Organizer
      ConBio2017(兵庫県神戸市)
    • Data Source
      KAKENHI-PROJECT-17K15083
  • [Presentation] MAPK p38αによるストレス刺激に適合した基質選別機構の解明2017

    • Author(s)
      徳永 裕二
    • Organizer
      第56回NMR討論会(東京都八王子市)
    • Data Source
      KAKENHI-PROJECT-17K15083
  • [Presentation] Structural Basis for the Optimum Signal Transduction via MAPK p38α under the Stress-associated ATP-depleted, Low pH Condition Elucidated by Solution NMR2016

    • Author(s)
      徳永裕二, 竹内恒, 高橋栄夫, 嶋田一夫
    • Organizer
      第42回内藤コンファレンス
    • Place of Presentation
      札幌シャトレーゼガトーキングダム
    • Year and Date
      2016-10-04
    • Data Source
      KAKENHI-PROJECT-16H07473
  • [Presentation] 低ATP濃度およびpH低下を付随するストレス刺激に対するMAPK p38αの頑強かつ基質選択的なリン酸化機構の溶液NMR解析2016

    • Author(s)
      徳永裕二, 竹内恒, 高橋栄夫, 嶋田一夫
    • Organizer
      第89回日本生化学会大会
    • Place of Presentation
      仙台国際センター/東北大学川内北キャンパス
    • Year and Date
      2016-09-25
    • Data Source
      KAKENHI-PROJECT-16H07473
  • 1.  Takeuchi Koh (20581284)
    # of Collaborated Projects: 3 results
    # of Collaborated Products: 9 results
  • 2.  Imashimizu Masahiko (90465930)
    # of Collaborated Projects: 2 results
    # of Collaborated Products: 8 results
  • 3.  坂倉 正義 (20334336)
    # of Collaborated Projects: 1 results
    # of Collaborated Products: 0 results
  • 4.  鴫 直樹 (20392623)
    # of Collaborated Projects: 1 results
    # of Collaborated Products: 0 results
  • 5.  田中 真人 (30386643)
    # of Collaborated Projects: 1 results
    # of Collaborated Products: 5 results
  • 6.  佐々木 章 (30580162)
    # of Collaborated Projects: 1 results
    # of Collaborated Products: 0 results

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