Updated on 2022/07/26

写真a

 
YOSHIDA Norio
 
Organization
Graduate School of Informatics Department of Complex Systems Science 3 Professor
Graduate School
Graduate School of Informatics
Undergraduate School
School of Informatics Department of Natural Informatics
Title
Professor
External link

Degree 1

  1. Doctor (Science) ( 2003.3   Kyoto University ) 

Research Interests 26

  1. 電荷移動

  2. 電気伝導

  3. 部分モル圧縮率

  4. 部分モル体積

  5. 蛋白質

  6. 理論化学

  7. 溶媒効果

  8. 水分子

  9. 正孔移動

  10. 構造揺らぎ

  11. 分子認識

  12. リガンド

  13. プロトン

  14. イオンチャネル

  15. イオン

  16. アクアポリン

  17. Theoretical Chemistry

  18. Solution Chemistry

  19. RISM理論

  20. Quantum Chemistry

  21. QM

  22. Molecular Biology

  23. MM

  24. DNA

  25. 3D-RISM理論

  26. 3D-RISM-SCF

Research Areas 4

  1. Life Science / Biophysics

  2. Natural Science / Biophysics, chemical physics and soft matter physics

  3. Nanotechnology/Materials / Bio chemistry

  4. Nanotechnology/Materials / Fundamental physical chemistry

Research History 6

  1. National Institutes of Natural Sciences   Institute for Molecular Science   Visiting Professor

    2022.4

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  2. Nagoya University   Graduate School of Informatics   Professor

    2022.3

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    Country:Japan

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  3. Kyushu University   Graduate School of Science   Associate professor

    2017.1 - 2022.2

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  4. Kyushu University   Associate professor

    2012.2 - 2016.12

  5. National Institute of Natural Sciences, Institute of Molecular Science   Assistant Professor

    2007.7 - 2012.2

  6. National Institute of Natural Sciences, Institute of Molecular Science   Post-Doc

    2004.4 - 2007.6

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Education 3

  1. Kyoto University

    1999.4 - 2003.3

  2. Kyoto University

    1997.4 - 1999.3

  3. Shinshu University

    1993.4 - 1997.3

Professional Memberships 7

  1. 日本生物物理学会

    2022.4

  2. 理論化学会

    2022.4

  3. Biophysical Society

    2020.1

  4. 日本物理学会

    2012.12

  5. 分子科学会

    2012.4

  6. 日本化学会

    2007.7

  7. 溶液化学研究会

    2007.4

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Committee Memberships 1

  1. 日本化学会   九州支部会計幹事  

    2017.4 - 2018.3   

Awards 1

  1. 溶液化学研究会奨励賞

    2011   溶液化学研究会  

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    Award type:International academic award (Japan or overseas) 

 

Papers 8

  1. Implementation of solvent polarization in three-dimensional reference interaction-site model self-consistent field theory Reviewed International journal

    Yoshida N., Yamaguchi T., Nakano H.

    Chemical Physics Letters   Vol. 797   2022.6

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    Authorship:Lead author, Corresponding author   Language:English   Publishing type:Research paper (scientific journal)   Publisher:Chemical Physics Letters  

    The three-dimensional reference interaction-site model self-consistent field (3D-RISM-SCF) theory is an electronic structure theory of solvated molecules, which can handle the electronic polarization of the solute molecule induced by the interaction with the solvent, whereas the electronic polarization of solvent molecules is ignored. Here, the solvent-polarizable model is implemented to take into account the electronic polarization of solvent molecules. It is applied to the water molecule in an aqueous solution and the p-nitroaniline molecule in an aqueous solution, and the effects of the solvent polarization on the properties of these solutes are demonstrated.

    DOI: 10.1016/j.cplett.2022.139579

    Scopus

  2. Computational Analysis of the SARS-CoV-2 RBD-ACE2-Binding Process Based on MD and the 3D-RISM Theory. Reviewed International coauthorship International journal

    Yoshida N, Maruyama Y, Mitsutake A, Kuroda A, Fujiki R, Kanemaru K, Okamoto D, Kobryn AE, Gusarov S, Nakano H

    Journal of chemical information and modeling     2022.5

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    Authorship:Lead author, Corresponding author   Language:English   Publishing type:Research paper (scientific journal)  

    DOI: 10.1021/acs.jcim.2c00192

    PubMed

  3. Structure and Properties of Supercritical Water: Experimental and Theoretical Characterizations

    Norio Yoshida, Masaru Matsugami, Yuichi Harano, Keiko Nishikawa, Fumio Hirata

    J   Vol. 4 ( 4 ) page: 698 - 726   2021.11

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    Publishing type:Research paper (scientific journal)   Publisher:MDPI AG  

    Water in the supercritical region of the phase diagram exhibits a markedly different structure and properties from that at ambient conditions, which is useful in controlling chemical reactions. Nonetheless, the experimental, as well as theoretical, characterization of the substance is not easy because the region is next to the critical point. This article reviews the experimental as well as theoretical studies on water in the supercritical region and its properties as a solvent for chemical reactions, as carried out by the authors and based on small-angle X-ray scattering and the statistical mechanics theory of molecular liquids, also known as reference interaction-site model (RISM) theory.

    DOI: 10.3390/j4040049

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  4. Modeling the interaction of SARS-CoV-2 binding to the ACE2 receptor via molecular theory of solvation

    Alexander E. Kobryn, Yutaka Maruyama, Carlos A. Velázquez-Martínez, Norio Yoshida, Sergey Gusarov

    New Journal of Chemistry   Vol. 45 ( 34 ) page: 15448 - 15457   2021.9

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    Language:Japanese   Publishing type:Research paper (scientific journal)   Publisher:Royal Society of Chemistry ({RSC})  

    DOI: 10.1039/d1nj02015c

    Web of Science

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  5. Temperature-responsive morphology formation of a PS-b-PI copolymer: a dissipative particle dynamics simulation study

    Natthiti Chiangraeng, Ukrit Keyen, Norio Yoshida, Piyarat Nimmanpipug

    Soft Matter   Vol. 17 ( 25 ) page: 6248 - 6258   2021.7

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    Language:Japanese   Publishing type:Research paper (scientific journal)   Publisher:Royal Society of Chemistry ({RSC})  

    DOI: 10.1039/d1sm00152c

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  6. A computational method to simulate global conformational changes of proteins induced by cosolvent

    Shoichi Tanimoto, Koichi Tamura, Shigehiko Hayashi, Norio Yoshida, Haruyuki Nakano

    Journal of Computational Chemistry   Vol. 42 ( 8 ) page: 564 - 571   2021.3

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    Language:Japanese   Publishing type:Research paper (scientific journal)   Publisher:Wiley  

    A computational method to investigate the global conformational change of a protein is proposed by combining the linear response path following (LRPF) method and three-dimensional reference interaction site model (3D-RISM) theory, which is referred to as the LRPF/3D-RISM method. The proposed method makes it possible to efficiently simulate protein conformational changes caused by either solutions of varying concentrations or the presence of cosolvent species by taking advantage of the LRPF and 3D-RISM. The proposed method is applied to the urea-induced denaturation of ubiquitin. The LRPF/3D-RISM trajectories successfully simulate the early stage of the denaturation process within the simulation time of 300 ns, whereas no significant structural change is observed even in the 1 mu s standard MD simulation. The obtained LRPF/3D-RISM trajectories reproduce the mechanism of the urea denaturation of ubiquitin reported in previous studies, and demonstrate the high efficiency of the method.

    DOI: 10.1002/jcc.26481

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  7. Solvation dynamics in electronically polarizable solvents: Theoretical treatment using solvent-polarizable three-dimensional reference interaction-site model theory combined with time-dependent density functional theory

    Tsuyoshi Yamaguchi, Norio Yoshida

    The Journal of Chemical Physics   Vol. 154 ( 4 ) page: 044504   2021.1

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    Language:Japanese   Publishing type:Research paper (scientific journal)  

    DOI: 10.1063/5.0036289

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  8. Molecular Recognition and Self-Organization in Life Phenomena Studied by a Statistical Mechanics of Molecular Liquids, the RISM/3D-RISM Theory

    Masatake Sugita, Itaru Onishi, Masayuki Irisa, Norio Yoshida, Fumio Hirata

    Molecules   Vol. 26 ( 2 )   2021.1

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    Language:Japanese   Publishing type:Research paper (scientific journal)  

    DOI: 10.3390/molecules26020271

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Books 1

  1. Molecular basics of liquids and liquid-based materials

    Nishiyama Katsura, Yamaguchi Tsuyoshi, Takamuku Toshiyuki, Yoshida Norio

    Springer  2021  ( ISBN:9789811653940

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    Language:English

    CiNii Books

Presentations 5

  1. 生体分子の溶媒和統計力学理論によるタンパク質機能解析への展開 Invited

    吉田紀生

    物性研短期研究会2022「理論タンパク質物性科学の最前線:理論と実験の密な協働」  2022.7.26 

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    Event date: 2022.7

    Language:Japanese   Presentation type:Oral presentation (invited, special)  

    Country:Japan  

  2. Development of a solvent-polarizable three-dimensional reference interaction-site model theory Invited International conference

    Norio Yoshida, Tsuyoshi Yamaguchi

    12th Triennial Congress of the World Association of Theoretical and Computational Chemists  2022.7.7 

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    Event date: 2022.7

    Language:English   Presentation type:Oral presentation (invited, special)  

    Country:Canada  

  3. STATISTICAL MECHANICS THEORY OF BIOMOLECULAR SOLVATION Invited International conference

    Norio Yoshida

    The 25th International Annual Symposium on Computational Science and Engineering (ANSCSE25)  2022.6.10 

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    Event date: 2022.6

    Language:English   Presentation type:Oral presentation (invited, special)  

    Country:Thailand  

  4. 生体分子の溶媒和理論によるタンパク質の構造と機能に関する研究 Invited

    吉田紀生

    第22回蛋白質科学会年会  2022.6.9 

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    Event date: 2022.6

    Language:Japanese   Presentation type:Oral presentation (invited, special)  

    Venue:つくば国際会議場  

  5. 3D-RISM理論を基盤としたマルチスケール手法の開発と展開 Invited

    吉田紀生

    電気化学界面コンソーシアム 2022年第1回研究会  2022.6.1 

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    Event date: 2022.6

    Language:Japanese   Presentation type:Oral presentation (invited, special)  

KAKENHI (Grants-in-Aid for Scientific Research) 6

  1. 動的溶液環境における天然変性タンパク質自己凝縮過程の理論研究

    Grant number:22H05089  2022.5 - 2025.3

    日本学術振興会  科学研究費  学術変革領域研究(B)

    吉田紀生

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    Authorship:Principal investigator  Grant type:Competitive

    Grant amount:\23920000 ( Direct Cost: \18400000 、 Indirect Cost:\5520000 )

  2. 動的溶液科学の推進

    Grant number:22H05087  2022.5 - 2025.3

    科学研究費助成事業  学術変革領域研究(B)

    関山 直孝, 菅瀬 謙治, 吉田 紀生, 中村 秀樹, 山口 毅

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    Authorship:Coinvestigator(s) 

    本研究領域は、化学的・物理的な状態が時空間的に変動する動的溶液環境に着目し、動的溶液環境が天然変性タンパク質の自己凝縮過程を制御する機構の解明を目指す。そのために、各計画研究で得られた結果や知見を統合し相互循環させることで力強く領域を推進する。加えて、領域内で得られた研究成果や研究手法を幅広い分野に向けて発信し、同時に他分野の知見も積極的に取り入れることで、本研究領域の発展を目指す。

  3. アミロイド触媒型の原始酵素モデルに着想した人工酵素のデザインと応用

    Grant number: 22H01873  2022.4 - 2025.3

    日本学術振興会  科学研究費補助金  アミロイド触媒型の原始酵素モデルに着想した人工酵素のデザインと応用

    吉田紀生

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    Authorship:Coinvestigator(s)  Grant type:Competitive

    Grant amount:\2600000 ( Direct Cost: \2000000 、 Indirect Cost:\600000 )

  4. Development of electron transfer dynamics theory of biological systems highly incorporating solvent response

    Grant number:19H02677  2019.4 - 2023.3

    Japan Society for the Promotion of Science  Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B)  Grant-in-Aid for Scientific Research (B)

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    Authorship:Principal investigator 

    Grant amount:\17420000 ( Direct Cost: \13400000 、 Indirect Cost:\4020000 )

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  5. Theoretical study of chemical and biological processes in solution by means of statistical mechanics of molecular liquids

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    Grant type:Competitive

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  6. 液体の統計力学理論に立脚した溶液内化学・生物過程に関する理論的研究

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    Grant type:Competitive

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