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Molecular mechanism for divergent interactions in PAS domain proteins

Research Project

Project/Area Number 23570194
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Biophysics
Research InstitutionNara Institute of Science and Technology

Principal Investigator

YAMAZAKI Yoichi  奈良先端科学技術大学院大学, 物質創成科学研究科, 助教 (40332770)

Co-Investigator(Renkei-kenkyūsha) KAMIKUBO Hironari  奈良先端科学技術大学院大学, 物質創成科 学研究科, 准教授 (20311128)
Project Period (FY) 2011 – 2013
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2013: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2012: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2011: ¥3,510,000 (Direct Cost: ¥2,700,000、Indirect Cost: ¥810,000)
Keywords光生物学 / 情報伝達 / タンパク質間相互作用 / 光受容
Research Abstract

There are many different functions even in a structurally homologous proteins. It is not clear how they realize these divergent functions on their same protein backbone. To evaluate these molecular divergent mechanism, two different PYP proteins classified as PAS domain proteins have been investigated about their molecular mechanism for structural changes and protein-protein interaction. As the results, (1) solution structure of the interaction protein for PYP has been identified. And then complex formation of this protein and PYP has been successfully identified. This complex was characteristic ring shape composed by hetero octamer. (2) a surface residue on the PYP has been identified as an interaction site. (3) X-ray crystal analysis for this PYP suggested that structural change was introduced around the interaction residue.

Report

(4 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Research-status Report
  • 2011 Research-status Report
  • Research Products

    (27 results)

All 2014 2013 2012 2011 Other

All Journal Article (2 results) (of which Peer Reviewed: 2 results) Presentation (23 results) Remarks (2 results)

  • [Journal Article] Mapping of the local environmental changes in proteins by cysteine scanning2014

    • Author(s)
      Yoichi Yamazaki, Tomoko Nagata, Akihisa Terakita, Hideki Kandori, Yoshinori Shichida, Yasushi Imamoto.
    • Journal Title

      Biophysics

      Volume: 10 Pages: 1-7

    • NAID

      130003392785

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Excited-State Proton Transfer in Fluorescent Photoactive Yellow Protein Containing 7-Hydroxycoumarin2014

    • Author(s)
      D. Novitasari, H. Kamikubo, Y. Yamazaki, M. Yamaguchi, M. Kataoka.
    • Journal Title

      Advanced Materials Research

      Volume: 896 Pages: 85-88

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Presentation] Analysis of interaction sites on the Photoactive Yellow Protein of Rhodobacter capsulatus2013

    • Author(s)
      Y. Yamazaki, M. Shimada, H. Kamikubo, M. Kataoka.
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都市
    • Year and Date
      2013-10-29
    • Related Report
      2013 Final Research Report
  • [Presentation] X-ray crystal structure analysis of the Photoactive Yellow Protein of Rhodobacter capsulatus2013

    • Author(s)
      H. Matsumoto, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都市
    • Year and Date
      2013-10-29
    • Related Report
      2013 Final Research Report
  • [Presentation] Analysis of Equilibrium of intermediate states of PYP by use of chimera proteins2013

    • Author(s)
      Y. Matsumoto, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都市
    • Year and Date
      2013-10-29
    • Related Report
      2013 Final Research Report
  • [Presentation] Excited-state proton transfer in fluorescent Photoactive Yellow Protein containing 7-hydroxycoumarin2013

    • Author(s)
      D. Novitasari, H. Kamikubo, Y. Yamazaki, M. Yamaguchi, M. Kataoka.
    • Organizer
      The International Conference on Advanced Materials Science and Technology
    • Place of Presentation
      Yogyakarta, Indonesia
    • Year and Date
      2013-09-17
    • Related Report
      2013 Final Research Report
  • [Presentation] Analysis of interaction sites on the Photoactive Yellow Protein of Rhodobacter capsulatus2013

    • Author(s)
      Y. Yamazaki, M. Shimada, H. Kamikubo, M. Kataoka
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都、国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] X-ray crystal structure analysis of the Photoactive Yellow Protein of Rhodobacter capsulatus2013

    • Author(s)
      H. Matsumoto, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都、国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] Analysis of Equilibrium of intermediate states of PYP by use of chimera proteins2013

    • Author(s)
      Y. Matsumoto, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第51回日本生物物理学会年会
    • Place of Presentation
      京都、国際会議場
    • Related Report
      2013 Annual Research Report
  • [Presentation] Excited-state proton transfer in fluorescent Photoactive Yellow Protein containing 7-hydroxycoumari2013

    • Author(s)
      D. Novitasari, H. Kamikubo, Y. Yamazaki, M. Yamaguchi, M. Kataoka
    • Organizer
      The International Conference on Advanced Materials Science and Technology,
    • Place of Presentation
      Yogyakarta, Indonesia
    • Related Report
      2013 Annual Research Report
  • [Presentation] The role of hydrogen bonding network around the chromophore for the interaction of Rc-PYP2012

    • Author(s)
      Y. Yamazaki, M. Shimada, H. Kamikubo, M. Kataoka.
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      名古屋市
    • Year and Date
      2012-09-23
    • Related Report
      2013 Final Research Report
  • [Presentation] Analysis of interaction sites on the Photoactive Yellow Protein of Rhodobacter capsulatus with chimeric proteins2012

    • Author(s)
      M. Shimada, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      名古屋市
    • Year and Date
      2012-09-23
    • Related Report
      2013 Final Research Report
  • [Presentation] Effect of N-terminal region to the structure formation of PYP2012

    • Author(s)
      M. Sakonji, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      名古屋市
    • Year and Date
      2012-09-23
    • Related Report
      2013 Final Research Report
  • [Presentation] Roles of hydrogen bonds around chromophore in Photoactive Yellow Protein studied by OH-deficient cinnamic acid2012

    • Author(s)
      M. Narumi, Y. Yamazaki, M. Yamaguchi, H. Kamikubo, M. Kataoka.
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      名古屋市
    • Year and Date
      2012-09-23
    • Related Report
      2013 Final Research Report
  • [Presentation] Solution structure of the complex states of Rhodobacter capsulatus PYP with its binding protein2011

    • Author(s)
      Y. Yamazaki, M. Hayashi, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      姫路市
    • Year and Date
      2011-09-17
    • Related Report
      2013 Final Research Report
  • [Presentation] The Role of N-terminal Region for Photoreaction of Various Photoactive Yellow Proteins2011

    • Author(s)
      R. Odani, Y. Yamazaki, K. Matsumoto, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      姫路市
    • Year and Date
      2011-09-17
    • Related Report
      2013 Final Research Report
  • [Presentation] Development of Light dependent protein activity control system by use of interaction of the Rc-PYP2011

    • Author(s)
      S. Setoguchi, H. Kubo, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka.
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      姫路市
    • Year and Date
      2011-09-17
    • Related Report
      2013 Final Research Report
  • [Presentation] pH effects on the spectral species and the photoreaction in the Photoactive Yellow Protein of Rhodobacter capsulatus.2011

    • Author(s)
      Y. Yamazaki, M. Sakoguchi, H. Kamikubo and M. Kataoka
    • Organizer
      The 5th Asia and Oceania Conference on Photobiology
    • Place of Presentation
      奈良新公会堂
    • Related Report
      2011 Research-status Report
  • [Presentation] Solution structure of the complex states of Rhodobacter capsulatus PYP with its binding protein2011

    • Author(s)
      Y. Yamazaki, M. Hayashi, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学
    • Related Report
      2011 Research-status Report
  • [Presentation] The Role of N-terminal Region for Photoreaction of Various Photoactive Yellow Proteins2011

    • Author(s)
      R. Odani, Y. Yamazaki, K. Matsumoto, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学
    • Related Report
      2011 Research-status Report
  • [Presentation] Development of Light dependent protein activity control system by use of interaction of the Rc-PYP2011

    • Author(s)
      S. Setoguchi, H. Kubo, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学
    • Related Report
      2011 Research-status Report
  • [Presentation] The role of hydrogen bonding network around the chromophore for the interaction of Rc-PYP

    • Author(s)
      Y. Yamazaki, M. Shimada, H. Kamikubo, M. Kataoka
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      愛知県名古屋市
    • Related Report
      2012 Research-status Report
  • [Presentation] Analysis of interaction sites on the Photoactive Yellow Protein of Rhodobacter capsulatus with chimeric proteins

    • Author(s)
      M. Shimada, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      愛知県名古屋市
    • Related Report
      2012 Research-status Report
  • [Presentation] Effect of N-terminal region to the structure formation of PYP

    • Author(s)
      M. Sakonji, Y. Yamazaki, H. Kamikubo, M. Yamaguchi, M. Kataoka
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      愛知県名古屋市
    • Related Report
      2012 Research-status Report
  • [Presentation] Roles of hydrogen bonds around chromophore in Photoactive Yellow Protein studied by OH-deficient cinnamic acid

    • Author(s)
      M. Narumi, Y. Yamazaki, M. Yamaguchi, H. Kamikubo, M. Kataoka
    • Organizer
      第50回日本生物物理学会年会
    • Place of Presentation
      愛知県名古屋市
    • Related Report
      2012 Research-status Report
  • [Remarks]

    • URL

      http://mswebs.naist.jp/LABs/kataoka/index.html

    • Related Report
      2013 Final Research Report
  • [Remarks]

    • URL

      http://mswebs.naist.jp/LABs/kataoka/

    • Related Report
      2011 Research-status Report

URL: 

Published: 2011-08-05   Modified: 2019-07-29  

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