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Development of the concept for structure-aided rational design of bright fluorescent protein

Research Project

Project/Area Number 21687007
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Structural biochemistry
Research InstitutionOsaka University (2011-2013)
Hokkaido University (2009-2010)

Principal Investigator

MATSUDA Tomoki  大阪大学, 産業科学研究所, 准教授 (50419206)

Project Period (FY) 2009-04-01 – 2013-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥27,560,000 (Direct Cost: ¥21,200,000、Indirect Cost: ¥6,360,000)
Fiscal Year 2012: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2011: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2010: ¥5,720,000 (Direct Cost: ¥4,400,000、Indirect Cost: ¥1,320,000)
Fiscal Year 2009: ¥13,520,000 (Direct Cost: ¥10,400,000、Indirect Cost: ¥3,120,000)
Keywords蛍光タンパク質 / 構造生物学 / タンパク質工学 / 分子シュミレーション / 構造生物 / 分子シミュレーション
Research Abstract

Fluorescent proteins are used as indispensable tool for biological research. However, enhancement of the fluorescence intensity has been accomplished by repeating the random mutagenesis, thus the effective way for improvement has been required. In this study we determined structures of the intermediates those were generated through the improvement of the fluorescence intensity for a bright fluorescent protein. From the comparison among them, we found structural features contributing to the improvement. In the mutants fluorescence intensity has enhanced, planarity of fluorescent chromophore is enhanced and main chain of the beta strand comes close to the fluorescent chromophore for stabilization. In combination with currently creating molecular modeling system based on the computational simulation, establishment of the rational design concept for bright fluorescent protein is expected by further study.

Report

(5 results)
  • 2013 Final Research Report ( PDF )
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • 2009 Annual Research Report
  • Research Products

    (27 results)

All 2014 2013 2012 2011 2010 2009 Other

All Journal Article (9 results) (of which Peer Reviewed: 8 results,  Open Access: 1 results) Presentation (16 results) (of which Invited: 5 results) Remarks (2 results)

  • [Journal Article] Optical control of the Ca2+ concentration in a live specimen with a genetically encoded Ca2+-releasing molecular tool.2014

    • Author(s)
      Fukuda N, Matsuda T, Nagai T.
    • Journal Title

      ACS chemical biology

      Volume: 9 Issue: 5 Pages: 1197-1203

    • DOI

      10.1021/cb400849n

    • Related Report
      2013 Final Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] 光スイッチング機能プローブで挑む細胞の個性2014

    • Author(s)
      松田 知己, 永井 健治
    • Journal Title

      生体の科学

      Volume: 65巻 Pages: 101-106

    • URL

      http://medicalfinder.jp/ejournal/2425101587.html

    • Related Report
      2013 Final Research Report
  • [Journal Article] Optical Control of the Ca2+ Concentration in a Live Specimen with a Genetically Encoded Ca2+-Releasing Molecular Tool2014

    • Author(s)
      Fukuda N., Matsuda T.
    • Journal Title

      ACS Chemical Biology

      Volume: online ahead of print

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] SuperNova, a monomeric photosensitizing fluorescent protein for chromophore-assisted light inactivation2013

    • Author(s)
      K. Takemoto (1), T. Matsuda (2)., 他12名
    • Journal Title

      Sci. Rep

      Volume: 3巻 Issue: 1 Pages: 2629-2629

    • DOI

      10.1038/srep02629

    • NAID

      120006995014

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] SuperNova, a monomeric photosensitizing fluorescent protein for chromophore-assisted light inactivation.2013

    • Author(s)
      Takemoto K., Matsuda T.
    • Journal Title

      Scientific Reports

      Volume: 3 / 2629

    • NAID

      120006995014

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 蛍光スイッチングイメージング2013

    • Author(s)
      松田 知己
    • Journal Title

      生物工学会誌

      Volume: 91 Pages: 585-585

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Fluorescence imaging of potassium ions in living cells using a fluorescent probe based on a thrombin binding aptamer-peptide conjugate2012

    • Author(s)
      K. Ohtsuka (1), T. Matsuda (6)., 他6名
    • Journal Title

      Chem. Comm

      Volume: 48巻 Issue: 39 Pages: 4740-4742

    • DOI

      10.1039/c2cc30536d

    • Related Report
      2013 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Spontaneous Network Activity Visualized by Ultra-sensitive Ca^2+ Indicators, Yellow cameloen-Nano2010

    • Author(s)
      K. Horikawa (1), T. Matsuda (3)., 他8名
    • Journal Title

      Chem. Comm

      Volume: 7巻 Issue: 9 Pages: 729-732

    • DOI

      10.1038/nmeth.1488

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Spontaneous network activity visualized by ultrasensitive Ca^<2+> indicators, yellow Cameleon-Nano2010

    • Author(s)
      Horikawa K.
    • Journal Title

      Nature Methods

      Volume: VoL/7 Pages: 729-732

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Presentation] 蛍光タンパク質プローブによる生理機能イメージングと操作2013

    • Author(s)
      松田 知己
    • Organizer
      日本生体エネルギー研究会第39回討論
    • Place of Presentation
      静岡県コンベンションアーツセンター(静岡県)
    • Year and Date
      2013-12-18
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] Beyond the diffraction limit with an advanced photoswitching fluorescent protein2013

    • Author(s)
      T. Matsuda
    • Organizer
      International Symposium on Morphological Science XXIII IMSM 2013
    • Place of Presentation
      Toki Messe Niigata Convention Center (Niigata)
    • Year and Date
      2013-09-13
    • Related Report
      2013 Final Research Report
    • Invited
  • [Presentation] Structural analysis of ultramarine fluorescent protein Sirius2013

    • Author(s)
      T. Matsuda
    • Organizer
      Biophysical Society 57th Annual Meeting
    • Place of Presentation
      Pennsylvania Convention Center (Philadelphia, USA)
    • Year and Date
      2013-02-03
    • Related Report
      2013 Final Research Report
  • [Presentation] 蛍光タンパク質プローブによる生理機能イメージングと操作2011

    • Author(s)
      松田 知己
    • Organizer
      日本生体エネルギー研究会第39回討論
    • Place of Presentation
      ホテル阪急エキスポパーク(大阪府吹田市)
    • Year and Date
      2011-06-07
    • Related Report
      2013 Final Research Report
  • [Presentation] 群青色蛍光タンパク質SiriusのX線結晶構造解析2011

    • Author(s)
      松田知己
    • Organizer
      第11回日本蛋白質科学会年会
    • Place of Presentation
      ホテル阪急エキスポパーク(大阪府吹田市)
    • Year and Date
      2011-06-07
    • Related Report
      2011 Annual Research Report
  • [Presentation] 群青色蛍光タンパク質SiriusのX線結晶構造解析2010

    • Author(s)
      松田 知己
    • Organizer
      第33回日本分子生物学会年会
    • Place of Presentation
      ホテル神戸ポートアイランド(神戸市)
    • Year and Date
      2010-12-08
    • Related Report
      2013 Final Research Report
  • [Presentation] 群青色蛍光タンパク質SiriusのX線結晶構造解析2010

    • Author(s)
      松田知己
    • Organizer
      第33回日本分子生物学会年会
    • Place of Presentation
      神戸ポートアイランド(神戸市)
    • Year and Date
      2010-12-08
    • Related Report
      2010 Annual Research Report
  • [Presentation] 生体組織内の任意の細胞でのCa^2+イメージングを可能にする光活性化指示薬の開発2010

    • Author(s)
      松田 知己
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター(札幌市)
    • Year and Date
      2010-06-16
    • Related Report
      2013 Final Research Report
  • [Presentation] 生体組織内の任意の細胞でのCa^<2+>イメージングを可能にする光活性化指示薬の開発2010

    • Author(s)
      松田知己
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌コンベンションセンター(札幌市)
    • Year and Date
      2010-06-16
    • Related Report
      2010 Annual Research Report
  • [Presentation] Direct measurement of protein dynamics in single living cells using a photoconvertible fluorescent protein Phamret2009

    • Author(s)
      T. Matsuda
    • Place of Presentation
      Jenelia farm/HHMI(Ashburn, USA)
    • Year and Date
      2009-11-02
    • Related Report
      2013 Final Research Report
  • [Presentation] Direct measurement of protein dynamics in single living cells using a photoconvertible fluorescent protein Phamret2009

    • Author(s)
      Tomoki Matsuda, Atsushi Miyawaki, Takeharu Nagai
    • Organizer
      Fluorescent proteins and biological sensors II
    • Place of Presentation
      Jenelia farm/HHMI、Ashburn(USA)
    • Year and Date
      2009-11-02
    • Related Report
      2009 Annual Research Report
  • [Presentation] Structural analysis of ultramarine fluorescent protein Sirius

    • Author(s)
      Matsuda T.
    • Organizer
      Biophysical Society 57th Annual Meeting
    • Place of Presentation
      Pennsylvania Convention Center, Philadelphia, USA
    • Related Report
      2012 Annual Research Report
  • [Presentation] Beyond the diffraction limit with an advanced photoswitching fluorescent protein

    • Author(s)
      Matsuda T.
    • Organizer
      International Symposium on Morphological Science, XXIII IMSM 2013
    • Place of Presentation
      Toki Messe Niigata Convention Center, Niigata, Japan
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 蛍光タンパク質プローブによる生理機能イメージングと操作

    • Author(s)
      松田 知己
    • Organizer
      日本生体エネルギー研究会第39回討論会
    • Place of Presentation
      静岡県コンベンションアーツセンター(静岡県)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Genetically-endoded photoactivatable functional indicator

    • Author(s)
      松田知己
    • Organizer
      第4回光操作研究会
    • Place of Presentation
      自然科学研究機構 岡崎カンファレンスセンター(愛知県)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Development of the photoactivatable Ca2+ indicator to visualize biological events in single arbitrary cells

    • Author(s)
      Matsuda T.
    • Organizer
      12th Symposium of the European Calcium Society
    • Place of Presentation
      Hotel-Dieu Saint Jacques, Toulouse, France
    • Related Report
      2012 Annual Research Report
  • [Remarks]

    • URL

      http://www.sanken.osaka-u.ac.jp/labs/bse/research_101205_1.html

    • Related Report
      2013 Final Research Report
  • [Remarks] 発光・蛍光タンパク質プローブの開発、群青色蛍光タンパク質 (シリウス) の開発

    • URL

      http://www.sanken.osaka-u.ac.jp/labs/bse/research_101205_1.html

    • Related Report
      2012 Annual Research Report

URL: 

Published: 2009-04-01   Modified: 2019-07-29  

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