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Ultra-fast NMR measurement to analyze dynamics of Sox2 in cells

Research Project

Project/Area Number 25650056
Research Category

Grant-in-Aid for Challenging Exploratory Research

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

Principal Investigator

SUGASE Kenji  公益財団法人サントリー生命科学財団, その他部局等, 主席研究員 (00300822)

Project Period (FY) 2013-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥4,030,000 (Direct Cost: ¥3,100,000、Indirect Cost: ¥930,000)
Fiscal Year 2014: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2013: ¥2,860,000 (Direct Cost: ¥2,200,000、Indirect Cost: ¥660,000)
Keywordsin-cell NMR / タンパク質 / 揺らぎ / 高速測定 / 高速NMR法
Outline of Final Research Achievements

We developed methods that enable rapid measurement of protein dynamics in cells using NMR. Specifically, we found that (i) a 2%-DMSO treatment of cells drastically enhanced the efficiency of protein incorporation into cells using the cell-penetrating peptide, (ii) presaturation of the water signal is useful for rapid NMR measurements to detect flexible regions in a protein, and (iii) the non-uniform sampling (NUS) method was utilized to reduce the total amount of experimental time and the SIFT algorithm, which we have been developing a computer program to reconstruct NUS data, was further developed. As a result, these newly developed methods enabled us to measure an NMR spectrum more rapidly by approximately one-third than the conventional measurement.

Report

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

    (9 results)

All 2014 2013

All Journal Article (4 results) (of which Peer Reviewed: 4 results,  Open Access: 1 results) Presentation (5 results) (of which Invited: 4 results)

  • [Journal Article] Solid-state NMR spectra of lipid-anchored proteins under magic angle spinning.2014

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

      J. Phys. Chem. B.

      Volume: 118 Issue: 9 Pages: 2405-2413

    • DOI

      10.1021/jp4124106

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Quantitative analysis of location- and sequence-dependent deamination by APOBEC3G using real-time NMR spectroscopy2014

    • Author(s)
      Furukawa, A., Sugase, K., Morishita, R., Nagata, T., Kodaki, T., Takaori-Kondo, A., Ryo, A., Katahira, M.
    • Journal Title

      Angew. Chem. Int. Ed. Engl.

      Volume: 53 Issue: 9 Pages: 2349-2352

    • DOI

      10.1002/anie.201309940

    • NAID

      120005647511

    • Related Report
      2013 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Solution structure of the Q41N variant of ubiquitin as a model for the alternatively folded N2 state of ubiquitin2013

    • Author(s)
      Soichiro Kitazawa, Tomoshi Kameda, Maho Yagi-Utsumi, Kenji Sugase, Nicola J. Baxter, Koichi Kato, Michael P. Williamson, Ryo Kitahara.
    • Journal Title

      Biochemistry

      Volume: 52 Issue: 11 Pages: 1874-1885

    • DOI

      10.1021/bi301420m

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Fast and accurate fitting of relaxation dispersion data using the flexible software package GLOVE2013

    • Author(s)
      Sugase, K., Konuma, T., Lansing, J.C., Wright, P.E.
    • Journal Title

      J. Biomol. NMR

      Volume: 56 Issue: 3 Pages: 275-283

    • DOI

      10.1007/s10858-013-9747-5

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Presentation] Structural dynamics of Sox2 upon binding to DNA2014

    • Author(s)
      Kenji Sugase
    • Organizer
      ICMRBS XXVI
    • Place of Presentation
      Texas, USA
    • Year and Date
      2014-08-24 – 2014-08-29
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] HLA-HIV由来抗原ペプチド複合体-水のダイナミクスと抗原提示能2014

    • Author(s)
      菅瀬謙治
    • Organizer
      関西創薬化学コミュニティ
    • Place of Presentation
      新大阪
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] 揺らぎが制御するヘム分解酵素反応の遠位効果2013

    • Author(s)
      菅瀬謙治
    • Organizer
      第14回若手NMR研究会
    • Place of Presentation
      京都
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] Mechanism of the distal regulation of substrate binding through intrinsic fluctuation in an enzyme2013

    • Author(s)
      Kenji Sugase
    • Organizer
      The 10th Korea-Japan Bilateral Symposium on Biological NMR
    • Place of Presentation
      ソウル、韓国
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] Analysis of protein dynamics in living human cells2013

    • Author(s)
      Kenji Sugase
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Related Report
      2013 Research-status Report

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

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