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Construction of Electronic Structure Database of Proteins

Research Project

Project/Area Number 15K20929
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Life / Health / Medical informatics
System genome science
Research InstitutionThe University of Tokyo

Principal Investigator

Hirano Toshiyuki  東京大学, 生産技術研究所, 助教 (60451887)

Project Period (FY) 2015-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥3,250,000 (Direct Cost: ¥2,500,000、Indirect Cost: ¥750,000)
Fiscal Year 2016: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2015: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywords蛋白質 / ハイパフォーマンス・コンピューティング / 電子状態 / 電子状態計算 / タンパク質 / 量子化学 / 分子軌道計算 / 波動関数 / 自動計算
Outline of Final Research Achievements

In the calculation of protein electronic structures, we have developed a software related to automation of computational structure modeling and automation of electronic structure calculation based on the QCLO method, and established fundamental technology to further accelerate the addition of calculation examples to the protein electronic structure database. By adopting the YAML format input file, it became possible to calculate protein electronic structure safely and conveniently using the QCLO method without programming. The developed source code has been published on the Internet.

Report

(3 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Research-status Report
  • Research Products

    (14 results)

All 2017 2016 2015 Other

All Journal Article (2 results) (of which Open Access: 2 results) Presentation (11 results) (of which Int'l Joint Research: 3 results,  Invited: 3 results) Remarks (1 results)

  • [Journal Article] カノニカル分子軌道計算に基づく線形回帰法を用いたタンパク質原子電荷の開発2016

    • Author(s)
      金泰煥, 平野敏行, 佐藤文俊
    • Journal Title

      生産研究

      Volume: 68 Pages: 213-217

    • NAID

      130005153090

    • Related Report
      2016 Annual Research Report
    • Open Access
  • [Journal Article] 量子化学計算によるオキシトシンの安定構造に関する研究2016

    • Author(s)
      紀平昌吾, 平野敏行, 佐藤文俊
    • Journal Title

      生産研究

      Volume: 68 Pages: 219-223

    • NAID

      130005153091

    • Related Report
      2016 Annual Research Report
    • Open Access
  • [Presentation] タンパク質の美しき電子の世界2017

    • Author(s)
      佐藤文俊, 平野敏行
    • Organizer
      日本農芸化学会2017
    • Place of Presentation
      京都女子大学 (京都)
    • Year and Date
      2017-03-17
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] A theoretical study of glucose oxidase using canonical molecular orbital calculation2017

    • Author(s)
      Toshiyuki Hirano, Fumitoshi Sato
    • Organizer
      The 57th Sanibel Symposium
    • Place of Presentation
      St. Simons Island (米国)
    • Year and Date
      2017-02-19
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 罰則付き回帰法に基づくタンパク質原子電荷の計算と性質2016

    • Author(s)
      平野敏行, 佐藤文俊
    • Organizer
      第39回ケモインフォマティクス討論会
    • Place of Presentation
      静岡大学 (浜松)
    • Year and Date
      2016-09-29
    • Related Report
      2016 Annual Research Report
  • [Presentation] グリッドフリー密度汎関数計算におけるエネルギー勾配計算2016

    • Author(s)
      平野敏行, 佐藤文俊
    • Organizer
      第10回分子科学討論会
    • Place of Presentation
      神戸ファッションマート (神戸)
    • Year and Date
      2016-09-13
    • Related Report
      2016 Annual Research Report
  • [Presentation] An effective grid-free approach based on the third-generation density-functional-theory calculation method2016

    • Author(s)
      Toshiyuki Hirano, Fumitoshi Sato
    • Organizer
      The 56th Sanibel Symposium
    • Place of Presentation
      St. Simons Island (米国)
    • Year and Date
      2016-02-14
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] グルコースオキシダーゼ反応機構の理論研究2016

    • Author(s)
      平野敏行, 佐藤文俊
    • Organizer
      第3回「京」を中核とするHPCIシステム利用研究課題 成果報告会
    • Place of Presentation
      コクヨホール (東京)
    • Related Report
      2016 Annual Research Report
  • [Presentation] A Third-generation Density Functional Calculation Program: ProteinDF2015

    • Author(s)
      Toshiyuki Hirano, Fumitoshi Sato
    • Organizer
      Pacifichem 2015
    • Place of Presentation
      Honolulu (米国)
    • Year and Date
      2015-12-15
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] 分散メモリ型超並列計算機に向けた大規模カノニカル分子軌道計算法の開発2015

    • Author(s)
      平野敏行
    • Organizer
      High Performance Computing Chemistry 2015
    • Place of Presentation
      理化学研究所(神戸)
    • Year and Date
      2015-12-01
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] 量子化学シミュレーションで観察するタンパク質2015

    • Author(s)
      平野敏行
    • Organizer
      東海コンファレンス
    • Place of Presentation
      信州大学(長野)
    • Year and Date
      2015-10-07
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] 第三世代密度汎関数計算法の進展2015

    • Author(s)
      平野 敏行, 王 笛申, 佐藤文俊
    • Organizer
      分子科学討論会
    • Place of Presentation
      東京工業大学(東京)
    • Year and Date
      2015-09-16
    • Related Report
      2015 Research-status Report
  • [Presentation] 自由なフラグメント分割可能な QCLO 法プログラムの開発2015

    • Author(s)
      平野敏行, 佐藤文俊
    • Organizer
      理論化学討論会
    • Place of Presentation
      大阪大学(大阪)
    • Year and Date
      2015-05-20
    • Related Report
      2015 Research-status Report
  • [Remarks] ProteinDF software package

    • URL

      https://proteindf.github.io/

    • Related Report
      2016 Annual Research Report 2015 Research-status Report

URL: 

Published: 2015-04-16   Modified: 2018-03-22  

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