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Elucidation for the mitochondrial tRNA processing mechanism

Research Project

Project/Area Number 23687015
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Structural biochemistry
Research InstitutionNational Institute of Advanced Industrial Science and Technology

Principal Investigator

NUMATA Tomoyuki  独立行政法人産業技術総合研究所, バイオメディカル研究部門, 主任研究員 (10401564)

Project Period (FY) 2011-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥27,300,000 (Direct Cost: ¥21,000,000、Indirect Cost: ¥6,300,000)
Fiscal Year 2014: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2013: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2012: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2011: ¥7,020,000 (Direct Cost: ¥5,400,000、Indirect Cost: ¥1,620,000)
KeywordstRNA / アンチコドン / 修飾ヌクレオシド / tRNA修飾酵素 / 結晶構造解析 / ミトコンドリア / tRNAプロセシング / RNase P / 生体高分子複合体 / tRNA修飾 / 化学修飾 / GTP結合タンパク質 / RNA / タンパク質 / X線結晶構造解析
Outline of Final Research Achievements

Post-transcriptional modifications at the tRNA anticodon loop are essential for precise decoding of the genetic code. The modification defects in mitochondrial tRNA are the main cause of the mitochondrial dysfunction. In this study, I determined the crystal structure of the tRNA modification enzyme, which is responsible for synthesizing the cyclic form of N6-threonylcarbamoyladenosine, as part of elucidating the tRNA modification mechanisms. Together with the structure-based mutational experiments, the amino acid residues crucial for the reaction were also identified.

Report

(5 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Annual Research Report
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • Research Products

    (14 results)

All 2015 2014 2013 2012 2011 Other

All Journal Article (7 results) (of which Peer Reviewed: 7 results,  Acknowledgement Compliant: 2 results) Presentation (7 results) (of which Invited: 2 results)

  • [Journal Article] Mechanisms of the tRNA wobble cytidine modification essential for AUA codon decoding in prokaryotes2015

    • Author(s)
      Tomoyuki Numata
    • Journal Title

      Bioscience, Biotechnology, and Biochemistry

      Volume: 79 Issue: 3 Pages: 347-353

    • DOI

      10.1080/09168451.2014.975185

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Convergent evolution of AUA decoding in bacteria and archaea2014

    • Author(s)
      Tsutomu Suzuki and Tomoyuki Numata
    • Journal Title

      RNA Biology

      Volume: 11 Issue: 12 Pages: 1586-1596

    • DOI

      10.4161/15476286.2014.992281

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Crystal structure of the Cmr2-Cmr3 subcomplex in the CRISPR-Cas RNA silencing effector complex2013

    • Author(s)
      Osawa, T., Inanaga, H. and Numata, T.
    • Journal Title

      J. Mol. Biol.

      Volume: 425 Issue: 20 Pages: 3811-3823

    • DOI

      10.1016/j.jmb.2013.03.042

    • Related Report
      2013 Annual Research Report 2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and preliminary X-ray diffraction analysis of the Cmr2-Cmr3 subcomplex in the CRISPR-Cas RNA-silencing effector complex2013

    • Author(s)
      Osawa, T., Inanaga, H. and Numata, T.
    • Journal Title

      Acta Crystallogr. Sect. F

      Volume: 69 Issue: 5 Pages: 585-587

    • DOI

      10.1107/s1744309113011202

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Biogenesis of 2-agmatinylcytidine catalyzed by the dual protein and RNA kinase TiaS2011

    • Author(s)
      Terasaka N., Kimura S., Osawa T., Numata T., Suzuki T.
    • Journal Title

      Nature Structural & Molecular Biology

      Volume: 18 Issue: 11 Pages: 1268-1274

    • DOI

      10.1038/nsmb.2121

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis of tRNA agmatinylation essential for AUA codon decoding2011

    • Author(s)
      Osawa T., Kimura S., Terasaka N., Inanaga H., Suzuki T.
    • Journal Title

      Nature Structural & Molcular Biology

      Volume: 18 Issue: 11 Pages: 1275-1280

    • DOI

      10.1038/nsmb.2144

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and preliminary X-ray diffraction analysis of an archaeal tRNA-modification enzyme, TiaS, complexed with tRNAIle2 and ATP2011

    • Author(s)
      Osawa et al.
    • Journal Title

      Acta Crystallogr. Sect. F

      Volume: 67 Pages: 1414-1416

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Presentation] N6-スレオニルカルバモイルアデノシンの環化反応を触媒するtRNA修飾酵素CsdLの機能構造解析2015

    • Author(s)
      沼田倫征、宮内健常、大澤拓生、鈴木勉
    • Organizer
      第3回物構研サイエンスフェスタ
    • Place of Presentation
      つくば国際会議場(茨城)
    • Year and Date
      2015-03-17
    • Related Report
      2014 Annual Research Report
  • [Presentation] tRNA転写後修飾メカニズムの分子的基盤解明2014

    • Author(s)
      沼田倫征
    • Organizer
      日本農芸化学会2014年度第2回関東支部例会
    • Place of Presentation
      東京工業大学(神奈川)
    • Year and Date
      2014-11-29
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] N6-スレオニルカルバモイルアデノシンの環化反応を触媒するtRNA修飾酵素CsdLの機能構造解析2014

    • Author(s)
      沼田倫征、宮内健常、大澤拓生、鈴木勉
    • Organizer
      第38回蛋白質と酵素の構造と機能に関する九州シンポジウム
    • Place of Presentation
      レイクサイドホテル久山(福岡)
    • Year and Date
      2014-09-11
    • Related Report
      2014 Annual Research Report
  • [Presentation] N6-スレオニルカルバモイルアデノシンの環化を触媒するtRNA修飾酵素の結晶構造2014

    • Author(s)
      沼田倫征、宮内健常、大澤拓生、鈴木勉
    • Organizer
      第14回日本蛋白質科学会年会
    • Place of Presentation
      横浜産貿ホール マリネリア(神奈川)
    • Year and Date
      2014-06-25
    • Related Report
      2014 Annual Research Report
  • [Presentation] tRNA修飾酵素TiaSによるtRNAIle2の認識機構2012

    • Author(s)
      沼田倫征
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      愛知(名古屋国際会議場)
    • Related Report
      2012 Annual Research Report
  • [Presentation] tRNAIle2アグマチニル化反応の構造的基盤2012

    • Author(s)
      大澤拓生
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      愛知(名古屋国際会議場)
    • Related Report
      2012 Annual Research Report
  • [Presentation] tRNA転写後修飾メカニズムの分子的基盤解明

    • Author(s)
      沼田倫征
    • Organizer
      日本農芸化学会2014年度大会
    • Place of Presentation
      京王プラザホテル(東京都)
    • Related Report
      2013 Annual Research Report
    • Invited

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Published: 2011-04-06   Modified: 2019-07-29  

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