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Development of a new multiscale molecular simulation system considering nuclear quantum fluctuation and its applications

Research Project

Project/Area Number 25870599
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Physical chemistry
Computational science
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

Kawashima Yukio  国立研究開発法人理化学研究所, 計算科学研究機構, 研究員 (90452739)

Project Period (FY) 2013-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2015: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2014: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2013: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywords理論化学 / 量子化学 / 計算化学 / 電子状態計算 / 分子シミュレーション / 核の量子揺らぎ / 水素結合 / 経路積分分子動力学 / 電子状態 / 密度汎関数法
Outline of Final Research Achievements

In this research project, a new multiscale molecular simulation system considering nuclear quantum fluctuation for large-scale hydrogen bond molecular systems is developed. The new program realizes both equilibrium and nonequilibrium simulations considering the nuclear quantum fluctuation, employing a multiscale method treating the important moieties in the molecular system quantum mechanically, and the other moieties classically. The software is further improved to execute efficient molecular simulations. The new simulation system is applied to various hydrogen bond systems to execute simulations treating the nuclear quantum fluctuation. The effect of the nuclear quantum fluctuation on the hydrogen bond and the entire molecular structure is elucidated.

Report

(4 results)
  • 2015 Annual Research Report   Final Research Report ( PDF )
  • 2014 Research-status Report
  • 2013 Research-status Report
  • Research Products

    (36 results)

All 2016 2015 2014 2013

All Journal Article (17 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 17 results,  Acknowledgement Compliant: 4 results) Presentation (19 results) (of which Invited: 4 results)

  • [Journal Article] From C60 to Infinity: Large-Scale Quantum Chemistry Calculations of the Heats of Formation of Higher Fullerenes2016

    • Author(s)
      B. Chan, Y. Kawashima, M. Katouda, T. Nakajima, K. Hirao
    • Journal Title

      Journal of the American Chemical Society

      Volume: 138 Issue: 4 Pages: 1420-1429

    • DOI

      10.1021/jacs.5b12518

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Performance of the OP correlation functional in relation to its formulation: Influence of the exchange component and the effect of incorporating same-spin correlations2016

    • Author(s)
      Bun Chan, J.-W. Song, Y. Kawashima, and K. Hirao
    • Journal Title

      Journal of Computational Chemistry

      Volume: 37 Issue: 14 Pages: 1306-1312

    • DOI

      10.1002/jcc.24327

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Theoretical vibrational spectra of OH-(H2O)2: Effect of quantum distribution and vibrational coupling2015

    • Author(s)
      Y. Ogata, Y. Kawashima, K. Takahashi, and M. Tachikawa
    • Journal Title

      Phys. Chem. Chem. Phys.

      Volume: 17 Issue: 38 Pages: 25505-25515

    • DOI

      10.1039/c5cp03632a

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Effects of monohydration on an adenine-thymine base pair2015

    • Author(s)
      S. Watanabe, Y. Ogata, T. Kawatsu, Y. Kawashima, and M. Tachikawa
    • Journal Title

      Theor. Chem. Acc.

      Volume: 134 Issue: 7 Pages: 84-84

    • DOI

      10.1007/s00214-015-1686-7

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Quantum simulation for muoniated and deuterated methyl radicals in implicit water solvent: combined ab initio path integral molecular dynamics and the polarizable continuum model simulation study2015

    • Author(s)
      K. Yamada, Y. Kawashima, and M. Tachikawa
    • Journal Title

      Mol. Sim.

      Volume: なし Issue: 10-12 Pages: 832-839

    • DOI

      10.1080/08927022.2014.938070

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Theoretical study on the stability of double-decker type metal phthalocyanines, M(Pc)2 and M(Pc)2+ (M = Ti, Sn and Sc): critical assessment on the performance of density functionals2015

    • Author(s)
      M. Sumimoto, Y. Kawashima, K. Hori, H. Fujimoto
    • Journal Title

      Phys. Chem. Chem. Phys.

      Volume: 17 Issue: 9 Pages: 6478-6483

    • DOI

      10.1039/c4cp05645k

    • Related Report
      2014 Research-status Report
    • Peer Reviewed
  • [Journal Article] Towards the Complete Range Separation of Non-Hybrid Exchange-Correlation Functional2015

    • Author(s)
      B. Chan, J. W. Song, Y. Kawashima, K. Hirao
    • Journal Title

      J. Comp. Chem.

      Volume: 36 Issue: 12 Pages: 871-877

    • DOI

      10.1002/jcc.23867

    • Related Report
      2014 Research-status Report
    • Peer Reviewed
  • [Journal Article] Is the structure of hydroxide dihydrate OH-(H2O)2? : An ab initio path integral molecular dynamics study2014

    • Author(s)
      Y. Ogata, Y. Kawashima, K. Takahashi, and M. Tachikawa
    • Journal Title

      Theor. Chem. Acc.

      Volume: 134 Issue: 1 Pages: 1587-1582

    • DOI

      10.1007/s00214-014-1587-1

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Accurate Prediction of Hyperfine Coupling Constant in Muoniated and Hydrogenated Ethyl Radicals: Ab Initio Path Integral Simulation Study with Density Functional Theory Method2014

    • Author(s)
      K. Yamada, Y. Kawashima, M. Tachikawa
    • Journal Title

      J. Chem. Theory. Comput.

      Volume: 10 Issue: 5 Pages: 2005-2015

    • DOI

      10.1021/ct500027z

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] An Ab Initio Path Integral Molecular Dynamics Study of the Nuclear Quantum Effect on Out-of-plane Ring Deformation of Hydrogen2014

    • Author(s)
      Y. Kawashima, M. Tachikawa
    • Journal Title

      J. Chem. Theory Comp.

      Volume: 10 Issue: 1 Pages: 153-163

    • DOI

      10.1021/ct4007986

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Theoretical study of substituent effect on the electronic excited states of chromophore in cyan flurescent proteins2014

    • Author(s)
      M. Takahashi, J. Koseki, Y. Kita, Y. Kawashima, M. Tachikawa
    • Journal Title

      Chin. J. Phys.

      Volume: -

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Muon-electron hyperfine coupling constants of muoniated ethyl radical: a path integral simulation study with semi-empirical molecular orbital method2014

    • Author(s)
      K. Yamada, Y. Kawashima, M. Tachikawa
    • Journal Title

      Chin. J. Phys.

      Volume: -

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Nuclear quantum effect on protonated Lysine with asymmetric low barrier hydrogen bond: ab initio path integral molecular dynamics study2013

    • Author(s)
      Y. Ogata, M. Daido, Y. Kawashima, M. Tachikawa
    • Journal Title

      RSC Adv.

      Volume: 3 Issue: 47 Pages: 23252-23257

    • DOI

      10.1039/c3ra44077j

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Three-dimensional Reference Interaction Site Model Self-consistent Field Study of the Solvation and Electronic Structures of [Cr(H2O)6]3+ in Aqueous Solution2013

    • Author(s)
      S. Fujishige, Y. Kawashima, N. Yoshida, H. Nakano
    • Journal Title

      J. Phys. Chem. A

      Volume: 117 Issue: 34 Pages: 8314-8322

    • DOI

      10.1021/jp405876g

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Ab initio path integral simulations for the fluoride ion-water clusters: Competitive nuclear quantum effect between F--water and water-water hydrogen bonds2013

    • Author(s)
      Y. Kawashima, K. Suzuki, M. Tachikawa
    • Journal Title

      J. Phys. Chem. A

      Volume: 117 Issue: 24 Pages: 5205-5210

    • DOI

      10.1021/jp403295h

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Nuclear quantum effect and temperature dependence on the hydrogen-bonded structure of base pairs2013

    • Author(s)
      M. Daido, Y. Kawashima, M. Tachikawa
    • Journal Title

      J. Comput. Chem.

      Volume: 34 Issue: 28 Pages: 2403-2411

    • DOI

      10.1002/jcc.23399

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Nuclear quantum effect on intramolecular hydrogen bond of hydrogen maleate anion: An ab initio path integral molecular dynamics study2013

    • Author(s)
      Y. Kawashima, M. Tachikawa
    • Journal Title

      Chem. Phys. Lett.

      Volume: 571 Pages: 23-27

    • DOI

      10.1016/j.cplett.2013.03.080

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Presentation] NTChemとスパコンを用いた大規模フラーレン分子の高精度計算2016

    • Author(s)
      川島雪生
    • Organizer
      第5回NTChemワークショップ
    • Place of Presentation
      秋葉原UDX(東京都千代田区)
    • Year and Date
      2016-03-09
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] 長距離補正密度汎関数法の高速化アルゴリズムの開発2015

    • Author(s)
      川島雪生、平尾公彦
    • Organizer
      第9回分子科学討論会2015東京
    • Place of Presentation
      東京工業大学(東京都大田区)
    • Year and Date
      2015-09-21
    • Related Report
      2015 Annual Research Report
  • [Presentation] MPc2およびMPc2+(M=Ti, Nb)の分子物性に関する理論的研究2015

    • Author(s)
      隅本倫徳、濱本信次、川島雪生、堀憲次、藤本斉
    • Organizer
      第9回分子科学討論会2015東京
    • Place of Presentation
      東京工業大学(東京都大田区)
    • Year and Date
      2015-09-21
    • Related Report
      2015 Annual Research Report
  • [Presentation] 経路積分分子動力学シミュレーションを用いた大規模計算の可能性2015

    • Author(s)
      川島雪生
    • Organizer
      第12回稲盛フロンティア研究講演会『実践的課題への応用に向けた大規模計算技術の可能性』
    • Place of Presentation
      九州大学
    • Year and Date
      2015-01-23
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] Analysis of Exact Exchange in Long-Range Corrected Density Functional Theory2014

    • Author(s)
      Y. Kawashima, K. Hirao
    • Organizer
      19th International Workshop on Quantum Systems in Chemistry, Physics and Biology
    • Place of Presentation
      Tamsui, Taiwan
    • Year and Date
      2014-11-11 – 2014-11-17
    • Related Report
      2014 Research-status Report
  • [Presentation] 植物代謝および光防御機構の解明のための量子化学計算アプローチ2014

    • Author(s)
      川島雪生
    • Organizer
      CBI学会2014年大会 フォーカストセッション 第一原理計算とメタボロミクス:予測と実証
    • Place of Presentation
      タワーホール船堀 (東京都江東区)
    • Year and Date
      2014-10-30
    • Related Report
      2014 Research-status Report
    • Invited
  • [Presentation] 長距離補正密度汎関数法を用いた物性計算におけるHF交換積分の解析2014

    • Author(s)
      川島雪生、平尾公彦
    • Organizer
      第8回分子科学討論会2014東広島
    • Place of Presentation
      広島大学
    • Year and Date
      2014-09-21 – 2014-09-24
    • Related Report
      2014 Research-status Report
  • [Presentation] 原子核の量子効果と温度効果を考慮したOH-(H2O)2クラスターの理論研究2014

    • Author(s)
      緒方勇大、川島雪生、高橋開人、立川仁典
    • Organizer
      第17回理論化学討論会
    • Place of Presentation
      名古屋大学
    • Year and Date
      2014-05-22 – 2014-05-24
    • Related Report
      2014 Research-status Report
  • [Presentation] 長距離補正密度汎関数法におけるHF交換積分の解析2014

    • Author(s)
      川島雪生、平尾公彦
    • Organizer
      第17回理論化学討論会
    • Place of Presentation
      名古屋大学
    • Year and Date
      2014-05-22 – 2014-05-24
    • Related Report
      2014 Research-status Report
  • [Presentation] Configuration Search of Water Hexamer Anion: A Simulated Annealing Study2014

    • Author(s)
      Y. Kawashima, H. Nakano, T. Sato, K. Yagi
    • Organizer
      “Dynamical ordering and integrated functions” 2nd International Symposium
    • Place of Presentation
      Campus Plaza Kyoto, Kyoto
    • Related Report
      2013 Research-status Report
  • [Presentation] The ring deformation of hydrogen maleate anion: A path integral molecular dynamics study2013

    • Author(s)
      Y. Kawashima, M. Tachikawa
    • Organizer
      5th International Symposium on Theoretical Chemistry
    • Place of Presentation
      Todai-ji National Center, Nara
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] Nuclear quantum effect on OH-(H2O)2 with ab initio path integral molecular dynamics2013

    • Author(s)
      Y. Ogata, Y. Kawashima. K. Takahashi, M. Tachikawa
    • Organizer
      3rd International Conference on Molecular Simulation
    • Place of Presentation
      Kobe International Conference Center, Kobe
    • Related Report
      2013 Research-status Report
  • [Presentation] Quantum simulation for exotic molecules: Quantum Monte Carlo and Path Integral approach2013

    • Author(s)
      K. Koyanagi, Y. Kita, K. Yamada, Y. Kawashima, M. Tachikawa
    • Organizer
      3rd International Conference on Molecular Simulation
    • Place of Presentation
      Kobe International Conference Center, Kobe
    • Related Report
      2013 Research-status Report
  • [Presentation] The ring deformation of hydrogen maleate anion: A path integral molecular dynamics study2013

    • Author(s)
      Y. Kawashima, M. Tachikawa
    • Organizer
      Sixth Asia-Pacific Conference of Theoretical and Computational Chemistry
    • Place of Presentation
      Gyeongju Hilton Hotel, Gyeongju, Korea
    • Related Report
      2013 Research-status Report
  • [Presentation] ab initio経路積分分子動力学法を用いたマレイン酸水素の分子内水素結合の解析2013

    • Author(s)
      川島雪生、立川仁典
    • Organizer
      第7回分子科学討論会2013京都
    • Place of Presentation
      京都テルサ、京都
    • Related Report
      2013 Research-status Report
  • [Presentation] Ti(Pc)2およびTi(Pc)2+の分子構造と電子構造に関する理論的研究2013

    • Author(s)
      隅本倫徳、川島雪生、堀憲次、藤本斉
    • Organizer
      第7回分子科学討論会2013京都
    • Place of Presentation
      京都テルサ、京都
    • Related Report
      2013 Research-status Report
  • [Presentation] ab initio経路積分分子動力学法を用いたOH-水二量体への原子核の量子効果の影響2013

    • Author(s)
      緒方勇大、川島雪生、高橋開人、立川仁典
    • Organizer
      第7回分子科学討論会2013京都
    • Place of Presentation
      京都テルサ、京都
    • Related Report
      2013 Research-status Report
  • [Presentation] エキゾチック分子系の理論化学2013

    • Author(s)
      小柳勝彦、北幸海、山田健太、川島 雪生、立川 仁典
    • Organizer
      第16回理論化学討論会
    • Place of Presentation
      福岡あいれふ、福岡
    • Related Report
      2013 Research-status Report
  • [Presentation] ab initio経路積分分子動力学法を用いた低障壁水素結合を持つプロトン化リシンの解析2013

    • Author(s)
      緒方勇大、大道雅史、川島雪生、立川仁典
    • Organizer
      第16回理論化学討論会
    • Place of Presentation
      福岡あいれふ、福岡
    • Related Report
      2013 Research-status Report

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Published: 2014-07-25   Modified: 2019-07-29  

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