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Challenges to NMR structural analysis of higher molecular weight proteins by direct measurement of carbon nuclei

Research Project

Project/Area Number 16K14683
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Structural biochemistry
Research InstitutionYokohama City University

Principal Investigator

Ikegami Takahisa  横浜市立大学, 生命医科学研究科, 教授 (20283939)

Project Period (FY) 2016-04-01 – 2020-03-31
Project Status Completed (Fiscal Year 2019)
Budget Amount *help
¥3,770,000 (Direct Cost: ¥2,900,000、Indirect Cost: ¥870,000)
Fiscal Year 2018: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2017: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2016: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Keywords核磁気共鳴 / NMR / 帰属 / TROSY / 13C / 酵素 / 選択的標識 / 安定同位体 / 蛋白質
Outline of Final Research Achievements

Analyses of proteins by nuclear magnetic resonance normally require assignment that determines the origins of signal peaks. However, the assignment becomes more difficult to achieve at higher pH conditions and for higher molecular weight proteins. In order to overcome this problem, the author tried shifting the pivot of sequential resonance assignment from the amide group 1H/15N to 1H/13C. The results showed that even with the most advanced NMR equipment, the 13C-FID sensitivity was still low and a concentration as high as 1 mM was required for analysis of high molecular weight proteins. However, 13C measurement is effective for samples with paramagnetic centers, such as metalloproteins, and intrinsically disordered proteins with no particular structure. Further progress is expected in the future with the development of pulse programs and hardware.

Academic Significance and Societal Importance of the Research Achievements

核磁気共鳴(NMR)は、病院で使われる MRI と同じ原理で作動する装置である。原子核と原子核の間の距離を見積もることができるため、この情報から例えば蛋白質の立体構造を決定することができる。これまでは蛋白質のアミド基 1H/15N を中心に解析が進められてきたが、当該研究ではこれを 13C に置き換えた。結果として 13C は 1H よりも感度が低く、完全な結果を得るまでには至らなかったが、シミュレーションなども通して、何が問題で将来に向けて改善していけばよいかという指標を得ることができた。

Report

(5 results)
  • 2019 Annual Research Report   Final Research Report ( PDF )
  • 2018 Research-status Report
  • 2017 Research-status Report
  • 2016 Research-status Report
  • Research Products

    (5 results)

All 2019 2018 2017 2016

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

  • [Journal Article] Calcium sensing via EF-hand 4 enables thioredoxin activity in the sensor-responder protein calredoxin in the green alga Chlamydomonas reinhardtii2019

    • Author(s)
      Charoenwattanasatien Ratana、Zinzius Karen、Scholz Martin、Wicke Susann、Tanaka Hideaki、Brandenburg Johann S.、Marchetti Giulia M.、Ikegami Takahisa、Matsumoto Takashi、Oda Takashi、Sato Mamoru、Hippler Michael、Kurisu Genji
    • Journal Title

      Journal of Biological Chemistry

      Volume: 295 Issue: 1 Pages: 170-180

    • DOI

      10.1074/jbc.ra119.008735

    • Related Report
      2019 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Analysis of artifacts caused by pulse imperfections in CPMG pulse trains in NMR relaxation dispersion experiments.2018

    • Author(s)
      Konuma, T., Nagadoi, A., Kurita, J., and Ikegami, T.
    • Journal Title

      Magnetochemistry

      Volume: 4 Issue: 3 Pages: 33-33

    • DOI

      10.3390/magnetochemistry4030033

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Association of ferredoxin:NADP+ oxidoreductase with the photosynthetic apparatus modulates electron transfer in Chlamydomonas reinhardtii.2017

    • Author(s)
      Mosebach, L., Heilmann, C., Mutoh, R., Gaebelein, P., Steinbeck, J., Happe, T., Ikegami, T., Hanke, G., Kurisu, G., Hippler, M.
    • Journal Title

      Photosynth. Res.

      Volume: 134 Issue: 3 Pages: 291-306

    • DOI

      10.1007/s11120-017-0408-5

    • Related Report
      2017 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] パルス不完全性を補償する15N/13C-CPMG-HSQCパルス系列の開発2019

    • Author(s)
      池上貴久, 小沼剛, 栗田順一, 長土居有隆
    • Organizer
      第58回NMR討論会
    • Related Report
      2019 Annual Research Report
  • [Presentation] Analysis of Artifacts Derived from Pulse Imperfections in CPMG Pulse Trains2016

    • Author(s)
      池上貴久
    • Organizer
      The XXVIIth International Conference on Magnetic Resonance in Biological Systems
    • Place of Presentation
      京都国際会館(京都府京都市)
    • Year and Date
      2016-08-21
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research

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Published: 2016-04-21   Modified: 2021-02-19  

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