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Rational design and application of artificial L-amino acid dehydrogenases from sequence database

Research Project

Project/Area Number 16K18688
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Applied biochemistry
Research InstitutionUniversity of Shizuoka

Principal Investigator

NAKANO SHOGO  静岡県立大学, 食品栄養科学部, 助教 (80748541)

Project Period (FY) 2016-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2017: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2016: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
KeywordsL-スレオニン脱水素酵素 / 祖先型設計 / 完全コンセンサス設計 / 構造機能解析 / X線結晶構造解析 / 反応機構 / 人工タンパク質 / アミノ酸脱水素酵素 / コンセンサス設計 / アミノ酸一次配列解析 / バイオテクノロジー / 人工蛋白質 / 酵素 / 配列解析
Outline of Final Research Achievements

Several L-amino acid dehydrogenases are expected to apply to quantify amino acid concentration in plasma. In this study, we utilized L-threonine dehydrogenase as research target. Two artificial SDR-TDHs were designed by utilizing sequence database to improve their enzymatic function. The artificial SDR-TDHs bore high thermal stability, NAD+ affinity and productivity compared with native SDR-TDH. Furthermore, enzyme kinetics parameters of the artificial SDR-TDHs are almost identical to the native SDR-TDH.
In addition, we can elucidate product release mechanism of SDR-TDH through structural and functional analysis of monomeric SDR-TDH.

Report

(3 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • Research Products

    (9 results)

All 2017 2016

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Open Access: 1 results) Presentation (4 results) (of which Int'l Joint Research: 1 results,  Invited: 2 results) Book (1 results) Patent(Industrial Property Rights) (1 results)

  • [Journal Article] Product Release Mechanism Associated with Structural Changes in Monomeric l-Threonine 3-Dehydrogenase2017

    • Author(s)
      Motoyama Tomoharu、Nakano Shogo、Yamamoto Yuta、Tokiwa Hiroaki、Asano Yasuhisa、Ito Sohei
    • Journal Title

      Biochemistry

      Volume: 56 Issue: 43 Pages: 5758-5770

    • DOI

      10.1021/acs.biochem.7b00832

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Rational identification of aggregation hotspots based on secondary structure and amino acid hydrophobicity2017

    • Author(s)
      Daisuke Matsui, Shogo Nakano, Mohammad Dadashipour, and Yasuhisa Asano
    • Journal Title

      Scientific reports

      Volume: 7 Issue: 1 Pages: 9558-9558

    • DOI

      10.1038/s41598-017-09749-2

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Origin of Stereoselectivity and Substrate/ligand Recognition in an FAD-Dependent R-Selective Amine Oxidase2016

    • Author(s)
      Nakano S, Yasukawa K, Tokiwa T, Ishikawa T, Ishitsubo E, Matsuo N, Ito S, Tokiwa H, Asano Y
    • Journal Title

      J. Phys. Chem.

      Volume: 120 Issue: 41 Pages: 10736-10743

    • DOI

      10.1021/acs.jpcb.6b09328

    • Related Report
      2016 Research-status Report
    • Peer Reviewed
  • [Presentation] Development of INTMSAlign software to design artificial proteins and assign enzymes2017

    • Author(s)
      Shogo Nakano, Sohei Ito and Yasuhisa Asano
    • Organizer
      2017年度日本生物工学会大会 (国際シンポジウム)
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] タンパク質一次構造に基づく新たなインシリコ酵素探索法, INTMSAlign_Anglerの開発2017

    • Author(s)
      中野 祥吾、本山 智晴、篠田 優、伊藤 創平、浅野 泰久
    • Organizer
      2017年度日本農芸化学会大会
    • Place of Presentation
      京都女子大学
    • Related Report
      2016 Research-status Report
  • [Presentation] Wet-Dry融合による新たな蛋白質工学的手法の開発 ~INTMSAlignの開発と応用~2016

    • Author(s)
      中野 祥吾
    • Organizer
      2016年度日本生物工学会 中部支部例会
    • Place of Presentation
      名古屋大学
    • Related Report
      2016 Research-status Report
    • Invited
  • [Presentation] Structure and bioinformatics analysis of industrially-promising enzymes for protein engineering2016

    • Author(s)
      Fumihiro Motojima and Shogo Nakano
    • Organizer
      ICC05-AEM2016
    • Place of Presentation
      Unazuki, Toyama
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Book] 生物工学会誌2017

    • Author(s)
      中野 祥吾
    • Total Pages
      1
    • Publisher
      日本生物工学会
    • Related Report
      2017 Annual Research Report
  • [Patent(Industrial Property Rights)] L-スレオニン脱水素用タンパク質(酵素)、目的活性を有するタンパク質のスクリーニング方法及び調製方法2016

    • Inventor(s)
      浅野 泰久、中野 祥吾、伊藤 創平、本山 智晴、松永 玲実
    • Industrial Property Rights Holder
      浅野 泰久、中野 祥吾、伊藤 創平、本山 智晴、松永 玲実
    • Industrial Property Rights Type
      特許
    • Industrial Property Number
      2016-234857
    • Filing Date
      2016-12-02
    • Related Report
      2016 Research-status Report

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Published: 2016-04-21   Modified: 2019-03-29  

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