Terada Tohru

テラダトオル | Terada Tohru

Affiliation and department：
Job title： Associate Professor
Homepage URL (2)： http://www.bi.a.u-tokyo.ac.jp/~tterada/index_ja.html , http://www.bi.a.u-tokyo.ac.jp/~tterada/index.html

Research field (1)： Biophysics

Research keywords (3)： Molecular dynamics , Bioinformatics , Molecular simulation

Research theme for competitive and other funds (14)：

2022 - 2027 予知生合成科学・研究総括班
2022 - 2027 Development of a method to predict substrate and reaction specificities using predicted structures
2022 - 2025 クライオ電顕を用いた鉄錯体輸送体の基質認識と輸送機構の解明
2015 - 2018 A theoretical verification of the ligand-binding-pathway hypothesis
2012 - 2015 Multi-scale simulation of protein-ligand binding process

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Papers (198)：

Atsushi Yamagata, Kaori Ito, Takehiro Suzuki, Naoshi Dohmae, Tohru Terada, Mikako Shirouzu. Structural basis for antiepileptic drugs and botulinum neurotoxin recognition of SV2A. Nature Communications. 2024
Fan Zhao, Yoshitaka Moriwaki, Tomohiro Noguchi, Kentaro Shimizu, Tomohisa Kuzuyama, Tohru Terada. QM/MM Study of the Catalytic Mechanism and Substrate Specificity of the Aromatic Substrate C-Methyltransferase Fur6. Biochemistry. 2024. 63. 6. 806-814
Masato Homma, Takatoshi Wakabayashi, Yoshitaka Moriwaki, Nanami Shiotani, Takumi Shigeta, Kazuki Isobe, Atsushi Okazawa, Daisaku Ohta, Tohru Terada, Kentaro Shimizu, et al. Insights into stereoselective ring formation in canonical strigolactone: Discovery of a dirigent domain-containing enzyme catalyzing orobanchol synthesis. 2023
Tomoki Sawa, Yoshitaka Moriwaki, Hanting Jiang, Kohji Murase, Seiji Takayama, Kentaro Shimizu, Tohru Terada. Comprehensive computational analysis of the molecular mechanism of self-incompatibility in Brassicaceae using improved structure prediction. 2023
Tomoki Sawa, Yoshitaka Moriwaki, Hanting Jiang, Kohji Murase, Seiji Takayama, Kentaro Shimizu, Tohru Terada. Comprehensive computational analysis of the SRK-SP11 molecular interaction underlying self-incompatibility in Brassicaceae using improved structure prediction for cysteine-rich proteins. bioRxiv. 2023

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MISC (39)：

Anri Terabayashi, Momoka Nakamura, Kyosuke Sakata, Takuya Miyakawa, Masaru Tanokura, Tohru Terada, Masaki Kojima. 2Pos062 A new program to analyze protein structures based on the geometric context. Seibutsu Butsuri. 2019. 59. Supplement1-2. S322-S492
水口千穂, VASILEVA Delyana, 藤本瑞, 寺田透, 岡田憲典, 野尻秀昭, 野尻秀昭. プラスミド・宿主染色体由来H-NSファミリータンパク質のヘテロ多量体形成機構. 日本農芸化学会大会講演要旨集(Web). 2017. 2017
角埜裕基, 水口千穂, 高橋裕里香, 寺田透, 岡田憲典, 野尻秀昭. Pseudomonas属細菌由来H-NSファミリータンパク質のDNA結合ドメインが持つ塩基配列嗜好性の解析. 日本ゲノム微生物学会年会要旨集. 2017. 11th
Haruyuki Yamashita, Tohru Terada, Reiko Ueda, Yoshiro Ishimaru, Keiko Abe, Tomiko Asakura. Long chain fatty acids have a bitterness-masking effect on quinine and other nitrogenous bitter substances by formation of insoluble binary complexes. CHEMICAL SENSES. 2016. 41. 9. E224-E224
Yoshitaka Moriwaki, Tohru Terada, Kouhei Tsumoto, Kentaro Shimizu. Insight into a Rapid Heme Transfer Reaction between Near Transporter Domains of Staphylococcus Aureus: A Theoretical Study using QM/MM and MD Simulations. BIOPHYSICAL JOURNAL. 2016. 110. 3. 381A-381A

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Lectures and oral presentations (19)：

Molecular simulation studies on protein functions and improvement of the efficiency of cryo-EM data collection by machine learning
(AHeDD2019/IPAB2019 Joint Symposium 2019)
Molecular simulation studies on protein functions and improvement of the efficiency of cryo-EM data collection by machine learning
(Chem-Bio Informatics Society (CBI) Annual Meeting 2019 2019)
Molecular simulations of ion channels to investigate voltage-dependent conformational change and drug-induced blockade
(11th symposium on Discovery, Fusion, Creation of New Knowledge by Multidisciplinary Computational Sciences (CCS International Symposium 2019) 2019)
Development of a deep-learning-based method to identify “good” regions of a cryo-EM grid
(The 57th Annual Meeting of the Biophysical Society of Japan 2019)
Analysis of the dynamics of protein conformational change using Markov state model
(The 56th Annual Meeting of the Biophysical Society of Japan 2018)

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Education (3)：

1994 - 1999 The University of Tokyo Graduate School of Science Department of Biophysics and Biochemistry
1992 - 1994 The University of Tokyo Faculty of Science Department of Biophysics and Biochemistry
1990 - 1992 The University of Tokyo College of Arts and Sciences Junior Division

Professional career (1)：

Ph.D. (The University of Tokyo)

Work history (13)：

2024/04 - 現在 The University of Tokyo Department of Biotechnology, Graduate School of Agricultural and Life Sciences Professor
2020/04 - 2024/03 The University of Tokyo Department of Biotechnology, Graduate School of Agricultural and Life Sciences Associate Professor
2018/04 - 2020/03 The University of Tokyo Interfaculty Initiative in Information Studies Associate Professor
2016/04 - 2018/03 The University of Tokyo Agricultural Bioinformatics Research Unit, Graduate School of Agricultural and Life Sciences Project Associate Professor
2014/04 - 2016/03 The University of Tokyo Department of Biotechnology, Graduate School of Agricultural and Life Sciences Associate Professor

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Association Membership(s) (6)：

Biophysical Society , THE MOLECULAR SIMULATION SOCIETY OF JAPAN , CHEM-BIO INFORMATICS SOCIETY , JAPANESE SOCIETY FOR BIOINFORMATICS , PROTEIN SCIENCE SOCIETY OF JAPAN , THE BIOPHYSICAL SOCIETY OF JAPAN

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