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Creation and Characterization of functional heme-DNA

Research Project

Project/Area Number 16K17929
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Bio-related chemistry
Research InstitutionUniversity of Tsukuba

Principal Investigator

SHIBATA Tomokazu  筑波大学, 数理物質系, 助教 (70739721)

Project Period (FY) 2016-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000)
Fiscal Year 2017: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Fiscal Year 2016: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
KeywordsDNA / ヘム / ペルオキシダーゼ活性 / G-カルテット / 四重鎖DNA / ヘム核酸 / Gカルテット
Outline of Final Research Achievements

A single DNA repeat sequence of the human telomere, d(TTAGGG), forms all parallel G-quadruplex DNA i.e., (d(TTAGGG))4. We found that heme binds to 3’-terminal G6 G-quartet of (d(TTAGGG))4 to form a stable complex. In this study, we have characterized the molecular structures of heme-(d(TTAGGGX))4 complexes, where X is vacant, A, or T, and the peroxidase activities of the complexes in order to delineate the relationship between the heme environment and peroxidase activity of the complex.
NMR analysis indicated that heme stacks onto G6-quartet of the DNA in the complex. Consequently, the interaction between heme and G6-quartet in the complex was found to be independent of the addition of the extra base at the 3’-terminal, i.e., A7 or T7.
Peroxidase activity of the heme-(d(TTAGGGA))4 complex was found to be remarkably higher than those of the other two complexes, suggesting that the 3’-terminal A of the DNA acts as a general base to enhance the catalytic activity of the complex.

Report

(3 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • Research Products

    (20 results)

All 2018 2017 2016

All Journal Article (1 results) (of which Peer Reviewed: 1 results,  Acknowledgement Compliant: 1 results) Presentation (19 results) (of which Int'l Joint Research: 9 results)

  • [Journal Article] Characterization of the interaction between heme and a parallel G-quadruplexDNA formed from d(TTGAGG)2016

    • Author(s)
      T. Shibata, Y. Nakayama, Y. Katahira, H. Tai, Y.Moritaka, Y. Nakano, and Y. Yamamoto
    • Journal Title

      Biochim. Biophys. Acta

      Volume: - Issue: 5 Pages: 1264-1270

    • DOI

      10.1016/j.bbagen.2016.11.005

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Presentation] 化学修飾ヘムと四重鎖DNA [d(TTAGGG)]4 の複合体のペルオキシダーゼ活性およびヘム配位構造の解析2018

    • Author(s)
      篠宮僚介, 柴田友和, 小倉尚志, 柳澤 幸子, 鈴木秋弘, 根矢三郎, Sen Dipankar, 山本泰彦
    • Organizer
      日本化学会 第98春季年会 (2018)
    • Related Report
      2017 Annual Research Report
  • [Presentation] ヒトテロメア類似塩基配列の四重鎖DNAとヘム複合体のNMR分光法による構造解析2018

    • Author(s)
      山本泰彦, 荒木はるか, 中山優作, 越智健太郎, 柴田友和, 逸見光, 萩原正規, Sen Dipankar
    • Organizer
      日本化学会 第98春季年会 (2018)
    • Related Report
      2017 Annual Research Report
  • [Presentation] ヒトテロメア類似塩基配列の四重鎖DNAとヘム複合体のペルオキシダーゼ活性と構造の関係の解析2018

    • Author(s)
      荒木はるか, 中山優作, 越智健太郎, 篠宮僚介, 柴田友和, 逸見光, 萩原正規, 小倉尚志, 柳澤幸子, 鈴木秋弘, 根矢三郎, Sen Dipankar, 山本泰彦
    • Organizer
      日本化学会 第98春季年会 (2018)
    • Related Report
      2017 Annual Research Report
  • [Presentation] Structural Characterization of G-Quadruplex DNAs Formed from Human Telomere-Related Sequences and Their Complexes with Heme2017

    • Author(s)
      Y. Yamamoto, K. Ochi, T. Shibata, H. Hemmi, M. Hagihara
    • Organizer
      58th Experimental Nuclear Magnetic Resonance Conference
    • Place of Presentation
      California, USA・Asilomar Conference Grounds, Pacific Grove
    • Year and Date
      2017-03-26
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] DNA塩基配列がヘム-DNA複合体の構造と機能に与える影響2017

    • Author(s)
      片平祐弥,柴田友和, 松井亨, 守橋健二, 渡部明莉, 中尾知美, 柳澤幸子, 小倉尚志, 山本泰彦
    • Organizer
      日本化学会 第97春季年会
    • Place of Presentation
      横浜市・慶応義塾大学日吉キャンパス
    • Year and Date
      2017-03-16
    • Related Report
      2016 Research-status Report
  • [Presentation] 種々のフッ素化ヘムと四重鎖DNA[d(TTAGGG)]4の複合 体の機能と構造2017

    • Author(s)
      篠宮僚介, 片平祐弥, 柴田友和, 小倉尚志, 柳澤幸 子, 中尾知美, 鈴木秋弘, 山本泰彦
    • Organizer
      日本化学会 第97春季年会
    • Place of Presentation
      横浜市・慶応義塾大学日吉キャンパス
    • Year and Date
      2017-03-16
    • Related Report
      2016 Research-status Report
  • [Presentation] ヘムと四重鎖DNAの複合体の構造解析2017

    • Author(s)
      越智健太郎, 山本泰彦, 柴田友和, 萩原正規, 逸見光
    • Organizer
      日本化学会 第97春季年会
    • Place of Presentation
      横浜市・慶応義塾大学日吉キャンパス
    • Year and Date
      2017-03-16
    • Related Report
      2016 Research-status Report
  • [Presentation] Heme-DNA Complexes2017

    • Author(s)
      Y. Yamamoto, T. Shibata, Y. Katahira, K. Ochi, Y. Nakayama, H. Tai, A. Watanabe, T. Nakao, S. Yanagisawa, T. Ogura, H. Hemmi, M. Hagihara, A. Suzuki, and S. Neya
    • Organizer
      14th International Symposium on Applied Bioinorganic Chemistry(ISABC14)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] ヘム-DNA複合体の酸化触媒活性とDNA塩基配列を通した活性調節2017

    • Author(s)
      片平祐弥,柴田友和, 松井亨, 守橋健二, 渡部明莉, 中尾知美, 柳澤幸子, 小倉尚志, 山本泰彦
    • Organizer
      第44回生体分子科学討論会
    • Related Report
      2017 Annual Research Report
  • [Presentation] Characterization of Peroxidase Activity of a Complex between Heme and G-Quadruplex DNA [d(TTAGGG)]42017

    • Author(s)
      R. Shinomiya, T. Shibata, S. Yanagisawa, T. Ogura, A. Suzuki, S. Neya, and Y. Yamamoto
    • Organizer
      ISNAC2017 第44回国際核酸化学シンポジウム
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Characterization of Complexes between heme and G-Quadruplex DNAs Formed from Human Telomere-Related Sequences2017

    • Author(s)
      T. Shibata, K. Ochi, H. Araki, Y. Nakayama, R. Shinomiya, S. Yanagisawa, T. Ogura, H. Hemmi, D. Sen, Y. Yamamoto
    • Organizer
      The second international symposium on biofunctional chemistry(ISBC2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Structures of Complexes between Chemically Modified Hemes and All Parallel G-Quadruplex DNA formed from d(TTAGGG)2017

    • Author(s)
      R. Shinomiya, T. Shibata, S. Yanagisawa, T. Ogura, A. Suzuki, S. Neya, D. Sen, Y. Yamamoto
    • Organizer
      The second international symposium on biofunctional chemistry(ISBC2017)
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Characterization of Complexes between Hemes and Parallel G-Quadruplex DNAs2016

    • Author(s)
      Y. Yamamoto, T. Shibata, Y. Katahira, Y. Nakayama, H. Tai, T. Matsui, K. Morihashi, A. Watanabe, T. Nakao, S. Yanagisawa, T. Ogura, A. Suzuki, S. Neya
    • Organizer
      8th Asian Bioligical Inorganic Chemistry Conference(AsBIC 8)
    • Place of Presentation
      New Zealand・Owen G Glenn Building 12 Grafton Rd, The University of Auckland
    • Year and Date
      2016-12-04
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] ヘムと四重鎖DNAの複合体の構造解析2016

    • Author(s)
      越智健太郎, 柴田友和, 逸見光, 萩原正規, 山本泰彦
    • Organizer
      第55回NMR討論会
    • Place of Presentation
      広島県広島市・広島国際会議場
    • Year and Date
      2016-11-16
    • Related Report
      2016 Research-status Report
  • [Presentation] Structural characterization of catalytic DNAs composed of heme and parallel G-quadruplexes2016

    • Author(s)
      Y. Katahira, T. Shibata, T. Matsui, K. Morihashi, A. Watanabe, T. Nakao, S. Yanagisawa, T. Ogura, and Y. Yamamoto
    • Organizer
      第43回国際核酸化学シンポジウム(ISNAC2016)
    • Place of Presentation
      熊本県熊本市・熊本大学工学部百周年記念館
    • Year and Date
      2016-09-27
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] Effects of DNA Sequence Alteration on Structure of a Complex between Heme and All-Parallel G-Quadruplex2016

    • Author(s)
      T. Shibata, Y. Nakano, Y. Moritaka, Y. Nakayama, Y. Katahira, H. Tai, and Y. Yamamoto
    • Organizer
      第43回国際核酸化学シンポジウム(ISNAC2016)
    • Place of Presentation
      熊本県熊本市・熊本大学工学部百周年記念館
    • Year and Date
      2016-09-27
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] ヘムと平行型四重鎖DNAの複合体の構造および機能の解析2016

    • Author(s)
      柴田友和,片平祐弥,山本 泰彦
    • Organizer
      第17回若手NMR研究会
    • Place of Presentation
      神奈川県箱根・箱根高原ホテル
    • Year and Date
      2016-09-10
    • Related Report
      2016 Research-status Report
  • [Presentation] ヘムと四重鎖DNAの複合体の触媒機能測定と構造解析2016

    • Author(s)
      山本泰彦,片平祐弥,中山優作,柴田友和,渡部明莉,中尾知美,柳澤幸子,小倉尚志,鈴木秋弘,根矢三郎
    • Organizer
      第10回バイオ関連化学シンポジウム
    • Place of Presentation
      石川県金沢市・石川県立音楽堂
    • Year and Date
      2016-09-07
    • Related Report
      2016 Research-status Report
  • [Presentation] Structural and Functional Characterization of Complexes between Heme and G-quadruplex DNAs formed from human telomere-related sequences2016

    • Author(s)
      T. Shibata, Y. Katahira, H. Hemmi, and Y. Yamamoto
    • Organizer
      The 27th International Conference on Magnetic Resonance in Biological Systems(ICMRBS2016)
    • Place of Presentation
      京都府京都市・京都国際会館
    • 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: 2019-03-29  

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