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Elucidating a DNA recognition mechanism of a transcriptional factor protein by characterizing dynamic processes of specific/non-specific DNA-bound complexes

Research Project

Project/Area Number 24770106
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Structural biochemistry
Research InstitutionSuntory Foundation for Life Sciences

Principal Investigator

HARADA ERISA  公益財団法人サントリー生命科学財団, その他部局等, 研究員 (70541332)

Co-Investigator(Renkei-kenkyūsha) SUGASE Kenji  公財)サントリー生命科学財団 (00300822)
Project Period (FY) 2012-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000)
Fiscal Year 2013: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Fiscal Year 2012: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
KeywordsNMR / 蛋白質構造
Research Abstract

Transcriptional factor sox2 is a one of the major factor gene used for induced pluripotent stem cell (iPSC) technologies. Sox2 possesses a high-mobility group box (HMG) domain, which specifically binds to only 6-7 bp of DNA to exert its function. However, DNA recognition mechanism of sox2 is not fully understood. In this study, to elucidate how sox2 recognizes the target sequence, we investigated dynamics of the HMG domain upon DNA binding using NMR. We found that the HMG domain is flexible and almost unfolded in the absence of DNA. However, when the HMG domain binds to the target sequences, the HMG domain forms stable structure with DNA. This study revealed that the unfolded structure of the HMG domain is stabilized upon DNA binding.

Report

(3 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Research-status Report
  • Research Products

    (10 results)

All 2014 2013 2012

All Journal Article (1 results) (of which Peer Reviewed: 1 results) Presentation (9 results)

  • [Journal Article] Solid-state NMR spectra of lipid- anchored proteins under magic angle spinning2014

    • Author(s)
      Nomura, K., Harada, E., Sugase, K., Shimamoto, K.
    • Journal Title

      J. Phys. Chem. B.

      Volume: 118 Pages: 2405-2413

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Presentation] Characterizing Conformational Flexibility of a DNA Binding Protein2014

    • Author(s)
      Erisa Harada, Tsuyoshi Konuma, Kenji Sugase
    • Organizer
      55th Experimental Nuclear Magnetic Resonance Conference
    • Place of Presentation
      Boston, USA
    • Related Report
      2013 Final Research Report
  • [Presentation] Characterizing Conformational Flexibility of a DNA Binding Protein2014

    • Author(s)
      Erisa Harada, Tsuyoshi Konuma, Kenji Sugase
    • Organizer
      55th Experimental Nuclear Magnetic Resonance Conference
    • Place of Presentation
      アメリカ ボストン
    • Related Report
      2013 Annual Research Report
  • [Presentation] Mechanism of the distal regulation of substrate binding through intrinsic fluctuation in an enzyme2013

    • Author(s)
      Kenji Sugase
    • Organizer
      The 10^<th> Korea-Japan Bilaterial Symposium on Biological NMR
    • Place of Presentation
      Seuol, Korea
    • Year and Date
      2013-07-04
    • Related Report
      2013 Final Research Report
  • [Presentation] Analysis of protein dynamics in living human cells2013

    • Author(s)
      Kenji Sugase, Erisa Harada, Toshio Takahashi, Shoko Mori
    • Organizer
      第36回分子生物学会
    • Place of Presentation
      神戸
    • Related Report
      2013 Final Research Report
  • [Presentation] Elucidation of nonspecific DNA-binding mechanism by quantitative analysis of chemical shift changes2013

    • Author(s)
      Tsuyoshi Konuma, Erisa Harada, Takashi Oda, Mamoru Sato, Kenji Sugase
    • Organizer
      5^<th> Asia-Pacific NMR Symposium
    • Place of Presentation
      Brisbane, Australia
    • Related Report
      2013 Final Research Report
  • [Presentation] Extracting information on protein dynamics from crowded NMR spectra using relaxation dispersion difference2013

    • Author(s)
      Tsuyoshi Konuma, Erisa Harada, Kenji Sugase
    • Organizer
      5^<th> Asia-Pacific NMR Symposium
    • Place of Presentation
      Brisbane, Australia
    • Related Report
      2013 Final Research Report
  • [Presentation] Analysis of protein dynamics in living human cells2013

    • Author(s)
      Kenji Sugase, Erisa Harada, Toshio Takahashi, Shoko Mori
    • Organizer
      第36回分子生物学会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] Elucidation of the DNA-binding dynamics of the transcription factor Oct3/4 POU homeodomain2012

    • Author(s)
      Tsuyoshi Konuma, Erisa Harada, Kenji Sugase
    • Organizer
      25th International Conference on Magnetic Resonance in Biological Systems
    • Place of Presentation
      Lyon, France
    • Related Report
      2013 Final Research Report
  • [Presentation] 揺らぎが制御するヘム分解酵素反応の遠位効果2012

    • Author(s)
      原田、杉島、原田、野口、福山、菅瀬
    • Organizer
      第35回 日本分子生物学会年会
    • Place of Presentation
      福岡
    • Related Report
      2012 Research-status Report

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Published: 2013-05-31   Modified: 2019-07-29  

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