Nagata Takashi

ナガタタカシ | Nagata Takashi

Affiliation and department：
Other affiliations (2)：

Kyoto University Graduate School of Energy Science, Department of Fundamental Energy Science
Kyoto University

Research field (7)： Pharmaceuticals - analytical and physicochemistry , Biochemistry , Molecular biochemistry , Analytical chemistry , Biophysics , Molecular biology , Structural biochemistry

Research keywords (64)： yeast surface display , FAE , feruloyl esterase , base-pair opening , Dynamics of nucleic acids , in-cell NMR , lytic polysaccharide monooxygenase , LPMO , NMR , NMR , X-ray difraction , liquid-liquid phase separation , LLPS , DNA origami , 蛋白質構造 , 核酸構造 , 立体構造 , 蛋白質-核酸相互作用 , 発現制御 , 翻訳制御 , 転写後調節 , transcription factor , 天然変性 , 四重鎖 , グアニン四重鎖 , Gカルテット , triplex , フォールディング , スライディング , HIV , アミロイド , Musashi , FUS , APOBEC , プリオン , 進化分子工学 , nanobody , VHH , SELEX , アプタマー , 核酸医薬 , バイオマス , woody biomass , plant biomass , lignin carbohydrate complex , LCC , リグノセルロース , リグニン , ヘミセルロース , fungi , glucuronoyl esterase , マンガンペルオキシダーゼ , cellulase , 腐朽菌 , RNAアプタマー , RNA工学 , 酵素 , 蛋白質工学 , 安定同位体 , ノンコーディングRNA , 非コードRNA , RNA結合蛋白質 , 蛋白質-蛋白質相互作用 , 核酸-蛋白質相互作用

Research theme for competitive and other funds (19)：

2023 - 2026 Development of an RNA aptamer that inhibits the protease degradation pathway conducted by HIV
2022 - 2026 低温地域に特化した持続的グルコース生産システムの創成
2020 - 2023 Development of AFM-based quadruplex DNA detection method using data science technology
2020 - 2023 Elucidation of the principles of formation of the Alzheimer's disease-related complex using nucleotide and peptide tools
2018 - 2023 中分子アゴニスト創薬のロジカルデザイン〜OX40 アゴニスト開発を実施例として〜

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Papers (109)：

Kazuyuki Kumagai, Keisuke Kamba, Takuya Suzuki, Yuto Sekikawa, Chisato Yuki, Michiaki Hamada, Kayoko Nagata, Akifumi Takaori-Kondo, Li Wan, Masato Katahira, et al. Selection and characterization of aptamers that bind to the Vif-CBF-ELOB-ELOC-CUL5 complex. Journal of Biochemistry, in press. 2024
Kanako Kuwasako, Weirong Dang, Fahu He, Mari Takahashi, Kengo Tsuda, Takashi Nagata, Akiko Tanaka, Naohiro Kobayashi, Takanori Kigawa, Peter Gunter, et al. ¹H, ¹³C, and ¹⁵N resonance assignments and solution structure of the N-terminal divergent caplonin homology (NN-CH) domain of human intraflagellar transport protein 54. Biomolecular NMR Assignments. 2024
Hideki Kusunoki, Taiichi Sakamoto, Naohiro Kobayashi, Toshiyuki Kohno, Kaori Wakamatsu, Takashi Nagata. Structural insights into the interaction between the C-terminal-deleted BH3-like motif peptide of hepatitis B virus X protein and Bcl-xL. Biochemistry. 2024. 63. 632-643
Nozomi Yoneda, Haruka Iyama, Takashi Nagata, Masato Katahira, Yoshiki Ishii, Kohei Tada, Kazuhiko Matsumoto, Rika Hagiwara. Fluoride Ion in Alcohols: Isopropanol vs. Hexafluoroisopropanol. The Journal of Physical Chemistry Letters. 2024. 15. 1677-1685
Apisan Phienluphon, Keiko Kondo, Bunzo Mikami, Kenneth Sze Kai Teo, Kaori Saito, Takashi Watanabe, Takashi Nagata, Masato Katahira. Structure-based characterization and improvement of an enzymatic activity of <i>Acremonium alcalophilum</i> feruloyl esterase. ACS Sustainable Chemistry & Engineering. 2024. 12. 3831-3840

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MISC (422)：

Keisuke Kamba, Li Wan, Kentaro Tozawa, Satoru Unzai, Ryo Morishita, Akifumi Takaori-Kondo, Takashi Nagata, Masato Katahira. Direct inhibition of human APOBEC3 deaminases by HIV-1 Vif independent of the ubiquitination/degradation pathway. 2024 IUPAB CONGRESS + 62nd Annual Meeting of the Biophysical Society of Japan, 2024.06.24-28. 2024
兎澤賢太郎, 神庭圭佑, 岩岡諒, 永田崇, 片平正人. HIV-1 Vif-human E3 ubiquitin ligase complex affects deaminase activity of human anti-viral/ cancer related factor APOBEC3. 第24回日本蛋白質科学会年会, 札幌コンベンションセンター, 2024.06.11-13. 2024
八木勇成, 近藤敬子, Huyen Nguyen, 渡辺隆司, 三上文三, 永田崇, 片平正人. The tyrosine residues on the substrate-binding surface of Lytic Polysacchride Monooxigeanase: their effect on the promotion of cellulose degradation. 第24回日本蛋白質科学会年会, 札幌コンベンションセンター, 2024.06.11-13. 2024
Hideki Kusunoki, Naohiro Kobayashi, Hajime Wakamatsu, Toshiyuki Tanaka, Takashi Nagata. A simple preparation method for stable isotope-labeled HBV X protein-derived peptides and an application to weak interaction systems with host proteins by NMR. 第24回日本蛋白質科学会年会, 札幌コンベンションセンター, 2024.06.11-13. 2024
Yudai Yamaoki, Takashi Nagata, Tomoki Sakamoto, Omar Eladl, Keiko Kondo, Masato Katahira. In-cell NMR analysis on base-pair opening dynamics and interactions with ligands of nucleic acids in living human cells. 2024 IUPAB CONGRESS + 62nd Annual Meeting of the Biophysical Society of Japan, 2024.06.24-28. 2024

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Patents (1)：

Hsp70を有効成分として含有するHIV-1感染症治療剤

Books (10)：

Experimental Approaches of NMR Spectroscopy -Methodology and Application to Life Science and Material Science 2nd Edition, in press
Springer Nature 2024
Integrated Bio-metal Science
NTS 2021
Observation of nucleic acids inside living human cells by in-cell NMR spectroscopy
Biophysics and Physicobiology, 13, 164, 2020 2020
Recent progress of in-cell NMR of nucleic acids in living human cells
Biophysical Reviews, 12, 411, 2020 2020
ヒト生細胞中における核酸NMRシグナルの初計測
生物物理誌 2019

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Lectures and oral presentations (24)：

Development of the in-cell NMR methods to investigate the dynamics and structure of biomacromolecules at various time-scales
(京都大学エネルギー理工学研究所R5年度第4回センター談話会 2023)
バイオマス利用に向けた構造生命科学的あアプローチ:可能性と挑戦
(京都大学宇治キャンパス公開2023エネルギー理工学研究所公開講演会 2023)
Structural Biology Approaches to Biomass Utilization: Opportunities and Challenges
(The 14th International Symposium of Advanced Energy Science 2023)
タンパク質のNMRシグナルの帰属・構造解析の基礎 ~自動化の時代~
(第22回若手NMR研究会 NMRによる多彩な生体試料へのアプローチ 2022)
Analysis of Structure and Dynamics of Oligonucleotides in Living Human Cells
(Joint conference of ISMAR-APNMR-NMRSJ-SEST 2021, 2021.8.23-27. 2021)

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Education (2)：

1994 - 1999 Yokohama National University
1992 - 1994 Yokohama National University

Professional career (1)：

博士(工学) (横浜国立大学大学院工学研究科)

Work history (9)：

2013/06 - 現在 Kyoto University Institute of Advanced Energy Associate professor
2011/09 - 2013/05 Kyoto University Institute of Advanced Energy Assistant professor
2009/04 - 2011/08 Yokohama City University Assistant professor
2008/04 - 2009/03 Yokohama City University International College of Arts and Sciences Assistant professor
2006/04 - 2008/03 Yokohama City University International College of Arts and Sciences Assistant professor

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Committee career (1)：

2016/04 - 現在日本分光学会編集委員

Awards (5)：

2023/03 - Institute of Advanced Energy, Kyoto University President's award 2022 Observation of the base-pair opening dynamics of nucleic acids
2002 - 米国白血病研究基金博士研究員奨学金
2001 - 米国白血病研究基金博士研究員奨学金
2001 - 米国エネルギー省米国エネルギー省奨学金(ポスター賞)
2000 - The Rockefeller University Presidential Fellowship

Association Membership(s) (7)：

THE SPECTROSCOPICAL SOCIETY OF JAPAN , THE BIOPHYSICAL SOCIETY OF JAPAN , THE NUCLEAR MAGNETIC RESONANCE SOCIETY OF JAPAN , THE RNA SOCIETY OF JAPAN , PROTEIN SCIENCE SOCIETY OF JAPAN , THE MOLECULAR BIOLOGY SOCIETY OF JAPAN , The Biophysical Society

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