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Structural and functional studies of multiple complexes of RNA polymerase

Research Project

Project/Area Number 23370048
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Structural biochemistry
Research InstitutionThe Institute of Physical and Chemical Research (2012-2014)
The University of Tokyo (2011)

Principal Investigator

SEKINE Shun-ichi  独立行政法人理化学研究所, ライフサイエンス技術基盤研究センター, チームリーダー (50321774)

Project Period (FY) 2011-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥19,890,000 (Direct Cost: ¥15,300,000、Indirect Cost: ¥4,590,000)
Fiscal Year 2014: ¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2013: ¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2012: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2011: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
Keywords転写 / RNAポリメラーゼ / 転写因子 / 校正 / X線結晶構造解析 / バクテリオファージ / 酵素 / クロスリンク / 構造機能相関 / X線結晶構造解
Outline of Final Research Achievements

RNA polymerase accomplishes transcription by temporally changing its conformation. We developed the CPX method to analyze the RNAP conformation in solution, and first established relationships between major transcription functions and RNAP’s tight-ratcheted structural forms. We also performed crystallographic analyses of RNAP complexes relevant to transcription initiation and elongation, and revealed the structural basis for proofreading, as well as the regulation mechanism by an external factor.

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

    (21 results)

All 2015 2014 2013 2012 2011 Other

All Journal Article (9 results) (of which Peer Reviewed: 8 results,  Acknowledgement Compliant: 4 results,  Open Access: 1 results) Presentation (7 results) Book (1 results) Remarks (4 results)

  • [Journal Article] The ratcheted and ratchetable structural States of RNA polymerase underlie multiple transcriptional functions.2015

    • Author(s)
      Sekine, S., Murayama, Y., Svetlov, V., Nudler, E., Yokoyama, S.
    • Journal Title

      Mol. Cell

      Volume: 57 Issue: 3 Pages: 408-421

    • DOI

      10.1016/j.molcel.2014.12.014

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Time-resolved Raman and polyacrylamide gel electrophoresis observations of nucleotide incorporation and misincorporation in RNA within a bacterial RNA polymerase crystal.2015

    • Author(s)
      Antonopoulos, I.H., Murayama, Y., Warner, B.A., Sekine, S., Yokoyama, S., Carey, P.R.
    • Journal Title

      Biochemistry

      Volume: 54 Issue: 3 Pages: 652-665

    • DOI

      10.1021/bi501166r

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Molecular basis of RNA polymerase promoter specificity switch revealed through studies of Thermus bacteriophage transcription regulator.2014

    • Author(s)
      Severinov, K,. Minakhin, L., Sekine, S., Lopatina, A., Yokoyama, S.
    • Journal Title

      Bacteriophage

      Volume: 4

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Development of a hexahistidine-3× FLAG-tandem affinity purification method for endogenous protein complexes in Pichia pastoris2014

    • Author(s)
      Toshiaki Higo, Noriyuki Suka, Haruhiko Ehara, Masatoshi Wakamori, Shin Sato, Hideaki Maeda, Shun-ichi Sekine, Takashi Umehara, and Shigeyuki Yokoyama
    • Journal Title

      J Struct Funct Genomics

      Volume: 15 Issue: 4 Pages: 191-199

    • DOI

      10.1007/s10969-014-9190-1

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Structural basis for promoter specificity switching of RNA polymerase by a phage factor2014

    • Author(s)
      Tagami, S., Sekine, S., Minakhin, L., Esyunina, D., Akasaka, R., Shirouzu, M., Kulbachinskiy, A., Severinov, K. and Yokoyama, S.
    • Journal Title

      Genes & Development

      Volume: 28 Issue: 5 Pages: 521-531

    • DOI

      10.1101/gad.233916.113

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and preliminary X-ray crystallographic analyses of Thermus thermophilus backtracked RNA polymerase.2013

    • Author(s)
      Murayama, Y.
    • Journal Title

      Acta Crystallogr. Sect. F

      Volume: 69 Issue: 2 Pages: 174-177

    • DOI

      10.1107/s1744309113000055

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Structural basis of transcription by bacterial and eukaryotic RNA polymerases.2012

    • Author(s)
      Sekine, S., et al.
    • Journal Title

      Curr Opin Struct Biol.

      Volume: 22 Issue: 1 Pages: 110-118

    • DOI

      10.1016/j.sbi.2011.11.006

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A novel conformation of RNA polymerase sheds light on the mechanism of transcription2011

    • Author(s)
      Tagami, S., et al.
    • Journal Title

      Transcription

      Volume: 2 Issue: 4 Pages: 162-167

    • DOI

      10.4161/trns.2.4.16148

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 転写因子によるRNAポリメラーゼの制御のメカニズム-細菌の転写を阻害する新たな仕組みの解明2011

    • Author(s)
      関根俊一, et al.
    • Journal Title

      化学と生物

      Volume: 49 Pages: 732-734

    • Related Report
      2011 Annual Research Report
  • [Presentation] 新生RNAによるRNAポリメラーゼの構造変化と機能との相関2014

    • Author(s)
      関根俊一
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] R/T conformational switching of RNA polymerase for the multiple transcription functions.2013

    • Author(s)
      関根俊一
    • Organizer
      FASEB Science Research Conference, Mechanism & Regulation of Prokaryotic Transcription
    • Place of Presentation
      Saxtons River, USA
    • Related Report
      2013 Annual Research Report
  • [Presentation] Structural basis for promoter switching of RNA polymerase by a phage-encoded factor2013

    • Author(s)
      関根俊一
    • Organizer
      FASEB Science Research Conference, Mechanism & Regulation of Prokaryotic Transcription
    • Place of Presentation
      Saxtons River, USA
    • Related Report
      2013 Annual Research Report
  • [Presentation] Structural basis for promoter switching of RNA polymerase by a phage-encoded protein2013

    • Author(s)
      関根俊一
    • Organizer
      The 7th International Conference on Structural Genomics 2013 - Structural Life Science (ICSG2013-SLS)
    • Place of Presentation
      札幌 京王プラザホテル
    • Related Report
      2013 Annual Research Report
  • [Presentation] SMART: an S-S based method to detect RNA polymerase conformational change2013

    • Author(s)
      関根俊一
    • Organizer
      The 65th Fujihara Seminar International Symposium on Synthetic Biology of Unnatural Base Pairs and Amino Acids
    • Place of Presentation
      苫小牧 グランドホテルニュー王子
    • Related Report
      2013 Annual Research Report
  • [Presentation] 転写校正においてRNAポリメラーゼの構造と活性を切りかえるメカニズム2012

    • Author(s)
      関根 俊一
    • Organizer
      第12回日本蛋白質科学会年会
    • Place of Presentation
      名古屋国際会議場
    • Related Report
      2012 Annual Research Report
  • [Presentation] 転写の校正反応においてRNAポリメラーゼの構造と活性を切りかえるメカニズム2012

    • Author(s)
      関根 俊一
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡国際会議場
    • Related Report
      2012 Annual Research Report
  • [Book] ブルーバックス放射光が解き明かす驚異のナノ世界-魔法の光が拓く物質世界の可能性-「数万もの生命の設計図を間違いなく書き写せるのはなぜ?」2011

    • Author(s)
      日本放射光学会編
    • Total Pages
      276
    • Publisher
      講談社
    • Related Report
      2011 Annual Research Report
  • [Remarks] 理研ライフサイエンス技術基盤研究センター 超分子構造解析研究チーム

    • URL

      http://www.clst.riken.jp/activity/structuralbiology_group1_team2.html

    • Related Report
      2014 Annual Research Report
  • [Remarks] 理研プレスリリース 「RNAポリメラーゼの働きを切り替えるメカニズムを解明」

    • URL

      http://www.riken.jp/pr/press/2015/20150206_3/

    • Related Report
      2014 Annual Research Report
  • [Remarks] ライフサイエンス技術基盤研究センター 超分子構造解析研究チーム

    • URL

      http://www.riken.go.jp/research/labs/clst/struct_synth_biol/struct_biol/supramol_struct_biol/

    • Related Report
      2013 Annual Research Report
  • [Remarks] 理化学研究所 ライフサイエンス技術基盤研究センター 超分子構造解析研究チーム

    • URL

      http://www.riken.go.jp/research/labs/clst/struct_synth_biol/struct_biol/supramol_struct_biol/

    • Related Report
      2012 Annual Research Report

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

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