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Structural Study of the Mechanism of Hydrogen Activation on Ni-enzymes

Research Project

Project/Area Number 22370061
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Biophysics
Research InstitutionUniversity of Hyogo

Principal Investigator

HIGUCHI Yoshiki  兵庫県立大学, 大学院・生命理学研究科, 教授 (90183574)

Co-Investigator(Renkei-kenkyūsha) SHOMURA Yasuhito  兵庫県立大学, 大学院・生命理学研究科, 助教 (50423900)
Project Period (FY) 2010 – 2012
Project Status Completed (Fiscal Year 2012)
Budget Amount *help
¥18,330,000 (Direct Cost: ¥14,100,000、Indirect Cost: ¥4,230,000)
Fiscal Year 2012: ¥7,670,000 (Direct Cost: ¥5,900,000、Indirect Cost: ¥1,770,000)
Fiscal Year 2011: ¥7,670,000 (Direct Cost: ¥5,900,000、Indirect Cost: ¥1,770,000)
Fiscal Year 2010: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
Keywordsヒドロゲナーゼ / X線結晶解析 / 反応機構 / Ni酵素 / 燃料電池
Research Abstract

We have studied newly found NAD+-reducing four subunits [NiFe] hydrogenase and O_2-tolerant membrane-bound [NiFe] hydrogenase (MBH) in this project. In 2010-2012, we have developed the new protocols for inoculation of the bacterium and purification for NAD+-reducing four subunits [NiFe] hydrogenase. For MBH, the x-ray crystal structures of as-isolated, H2-reduced and chemically super-oxidized MBH at high resolution has been successfully determined. Overall structure of the molecule and the coordination geometry of the Dinuclear Ni-Fe active site of the MBH are almost identical to those of the standard O_2-sensitive [NiFe] hydrogenase. The proximal iron-sulfur (Fe-S) cluster, however, has a [4Fe-3S]-6Cys structure. When the enzyme is chemically oxidized, the cluster supplies additional electrons to the Ni-Fe active site, and a deprotonated amide nitrogen of the polypeptide backbone coordinates the Fe atom stabilizing the super-oxidized state of the cluster.

Report

(4 results)
  • 2012 Annual Research Report   Final Research Report ( PDF )
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • Research Products

    (110 results)

All 2013 2012 2011 2010

All Journal Article (48 results) (of which Peer Reviewed: 42 results) Presentation (51 results) (of which Invited: 6 results) Book (11 results)

  • [Journal Article] Studies on hydrogenase2013

    • Author(s)
      T. Yagi, Y. Higuchi
    • Journal Title

      Proceedings of the Japan Academy, Series B

      Volume: 89 Issue: 1 Pages: 16-33

    • DOI

      10.2183/pjab.89.16

    • NAID

      130003365103

    • ISSN
      0386-2208, 1349-2896
    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Photosensitivity of the Ni-A State of [NiFe] Hydrogenase from Desulfovibrio vulgaris Miyazaki F with Visible Light2013

    • Author(s)
      H. Osuka, Y. Shomura, H. Komori, N. Shibata, S. Nagao, Y. Higuchi, S. Hirota
    • Journal Title

      Biochemical and Biophysical Research Communications

      Volume: 430 Issue: 1 Pages: 284-288

    • DOI

      10.1016/j.bbrc.2012.10.136

    • NAID

      120005716864

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Inhibitory activity of Filipendula ulmaria on recombinant histidine decarboxykase.2013

    • Author(s)
      Nitta Yoko
    • Journal Title

      Food Chemistry

      Volume: 138 Issue: 2-3 Pages: 1551-1556

    • DOI

      10.1016/j.foodchem.2012.10.074

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] 膜結合型ヒドロゲナーゼの酸素耐性機構の解明2013

    • Author(s)
      庄村康人,樋口芳樹
    • Journal Title

      生物物理

      Volume: 53 Pages: 82-85

    • NAID

      10031151786

    • Related Report
      2012 Annual Research Report
  • [Journal Article] Crystal Structure Analysis of the Translation Factor RF3 (release factor 3)2012

    • Author(s)
      K. Kihira, Y. Shimizu, Y. Shomura, N. Shibata, M. Kitamura, A. Nakagawa, T. Ueda, K. Ochi, Y.Higuchi
    • Journal Title

      FEBS Letters

      Volume: 586 Issue: 20 Pages: 3705-3709

    • DOI

      10.1016/j.febslet.2012.08.029

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Domain Swapping of the Heme and N-Terminal α-Helix in Hydrogenobacter thermophilus Cytochrome c552 Dimer2012

    • Author(s)
      Y. Hayashi, S. Nagao, H. Osuka, H. Komori, Y. Higuchi, S. Hirota
    • Journal Title

      Biochemistry

      Volume: 51 Issue: 43 Pages: 8608-8616

    • DOI

      10.1021/bi3011303

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural study reveals Ser354 determines substrate specificity on human histidine decarboxylase2012

    • Author(s)
      Komori Hirofumi
    • Journal Title

      J. Biol. Chem.

      Volume: 287 Issue: 34 Pages: 29175-29183

    • DOI

      10.1074/jbc.m112.381897

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structural and Oxygen Binding Properties of Dimeric Horse Myoglobin2012

    • Author(s)
      S. Nagao, H. Osuka, T. Yamada, T. Uni, Y. Shomura, K. Imai, Y. Higuchi, S. Hirota
    • Journal Title

      Dalton Transactions

      Volume: 41 Issue: 37 Pages: 11378-11385

    • DOI

      10.1039/c2dt30893b

    • NAID

      120005716865

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Purification, Structural Basis for the Reaction Mechanism of S-carbamoylation of HypE by HypF in the Maturation of [NiFe]-hydrogenases2012

    • Author(s)
      Y. Shomura, Y. Higuchi
    • Journal Title

      J. Biol. Chem

      Volume: 287 Issue: 34 Pages: 28409-18419

    • DOI

      10.1074/jbc.m112.387134

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Purification, crystallization, and preliminary X-ray analysis of human histidine decarboxylase2012

    • Author(s)
      Komori Hirofumi
    • Journal Title

      Acta Crystallogr Sect F Struct Biol Cryst Commun

      Volume: 68 Issue: 6 Pages: 675-677

    • DOI

      10.1107/s1744309112015692

    • Related Report
      2012 Annual Research Report 2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] An O-Centered Structure of the Trinuclear Copper Center in the Cys500Ser/Glu506Gln Mutant of CueO and Structural Changes in Low to High X-Ray Dose Conditions2012

    • Author(s)
      H.Shomura, et al
    • Journal Title

      Protein Science

      Volume: 21 Issue: 5 Pages: 707-716

    • DOI

      10.1002/pro.2058

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] An O-Centered Structure of the Trinuclear Copper Center in the Cys500Ser/Glu506Gln Mutant of CueO and Structural Changes in Low to High X-Ray Dose Conditions2012

    • Author(s)
      H.Komori, et al
    • Journal Title

      Angewandte Chemie

      Volume: 51 Issue: 8 Pages: 1861-1864

    • DOI

      10.1002/anie.201107739

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The Three-dimensional Structure of Nylon Hydrolase and the Mechanism of Nylon-6 Hydrolysis2012

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

      J.Biol.Chem.

      Volume: 287 Issue: 7 Pages: 5079-5090

    • DOI

      10.1074/jbc.m111.321992

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] ヒドロゲナーゼの新規酸素耐性機構 -膜結合型[NiFe]ヒドロゲナーゼ2012

    • Author(s)
      庄村康人,樋口芳樹
    • Journal Title

      化学

      Volume: 67 Pages: 70-71

    • Related Report
      2012 Annual Research Report
  • [Journal Article] 酸素耐性ヒドロゲナーゼの構造化学的研究-酵素分子に見出された活性保護機構-2012

    • Author(s)
      庄村康人,樋口芳樹
    • Journal Title

      燃料電池

      Volume: 11 Pages: 67-72

    • NAID

      40019321797

    • Related Report
      2012 Annual Research Report
  • [Journal Article] [4Fe-3S]クラスターによる[NiFe]ヒドロゲナーゼの酸素耐性機構の構造基盤2012

    • Author(s)
      庄村康人,樋口芳樹
    • Journal Title

      SPring-8利用者情報誌

      Volume: 17 Pages: 105-110

    • Related Report
      2012 Annual Research Report
  • [Journal Article] Crystal structure of O2-tolerant [NiFe] hydrogenase reveals the mechanism of O2-tolerance attributable to a redox-dependent conformational change of [4Fe-3S] cluster2012

    • Author(s)
      Y. Shomura and Y. Higuchi
    • Journal Title

      SPring-8 Research Frontier 2011

      Volume: 2011 Pages: 5-6

    • Related Report
      2012 Annual Research Report
  • [Journal Article] シトクロムc ポリマー:水溶性球状タンパク質に見出された多量化機構2012

    • Author(s)
      廣田俊,樋口芳樹
    • Journal Title

      日本結晶学会誌

      Volume: 54 Pages: 270-275

    • NAID

      10031129961

    • Related Report
      2012 Annual Research Report
  • [Journal Article] Structural Basis for a[4Fe-3S] Cluster in the Oxygen-tolerant Membrane-bound[Ni-Fe]-hydrogenase2011

    • Author(s)
      Y. Shomura, K. Yoon, H. Nishihara, Y. Higuchi
    • Journal Title

      Nature

      Volume: 479 Issue: 7372 Pages: 253-257

    • DOI

      10.1038/nature10504

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and Preliminary X-ray Diffraction Analysis of Membrane-bound Respiratory [NiFe] Hydrogenase from Hydrogenovibrio marinus2011

    • Author(s)
      Y.Shomura, et al
    • Journal Title

      Acta Crystallgor

      Volume: 67 Issue: 7 Pages: 827-829

    • DOI

      10.1107/s1744309111019804

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Molecular Dynamics Studies on Mutational Structures of a Nylon-6 Byproduct-degrading Enzyme2011

    • Author(s)
      T.Baba, et al
    • Journal Title

      Chem.Phys.Lett.

      Volume: 507 Issue: 1-3 Pages: 157-161

    • DOI

      10.1016/j.cplett.2011.03.046

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] How Coenzyme B12-dependent Ethanolamine Ammonialyase Deals with Both Enantiomers of 2-Amino-1-propanol as Substrates: Structure-based Rationalization2011

    • Author(s)
      N. Shibata, Y. Higuchi and T. Toraya
    • Journal Title

      Biochemistry

      Volume: 50 Issue: 4 Pages: 591-598

    • DOI

      10.1021/bi101696h

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and X-ray Diffraction Analysis of Nylon Oligomer Hydrolase (NylC) from Agromyces sp.KY5R2011

    • Author(s)
      K.Yasuhira, et al
    • Journal Title

      Acta Crystallgor

      Volume: 67 Issue: 8 Pages: 892-895

    • DOI

      10.1107/s1744309111022858

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallographic Characterization of the DIX Domain of the Wnt Signalling Positive Regulator Ccd12011

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

      Acta Crystallgor

      Volume: F67 Issue: 7 Pages: 758-761

    • DOI

      10.1107/s1744309111016526

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Positively Charged Domain Located Downstream of PIP Box, Together with TD Amino Acids within PIP Box, is Important for CRL4^-mediated Proteolysis2011

    • Author(s)
      M. Michishita, A. Morimoto, T. Ishii, H. Komori, Y. Shiomi, Y. Higuchi and H. Nishitani
    • Journal Title

      Genes to Cells

      Volume: 16 Pages: 12-22

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Hiraki Localization of chondromodulin-I at the feto-maternal interface and its inhibitory actions on trophoblast invasion in vitro2011

    • Author(s)
      Miura, C. Shukunami, K. Mitsui, J. Kondo, Y
    • Journal Title

      BMC Cell Biol

      Volume: 12 Issue: 1 Pages: 34-34

    • DOI

      10.1007/s00774-010-0193-0

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Role of π-Electron Systems in Stabilization of the Oxidized Tetraheme Architecture in Cytochrome c_32011

    • Author(s)
      Y.Takayama, et al
    • Journal Title

      Bull.Chem.Soc.Jpn.

      Volume: 84 Issue: 10 Pages: 1096-1101

    • DOI

      10.1246/bcsj.20110039

    • NAID

      130004152811

    • Related Report
      2012 Final Research Report 2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A Functional Role of the Glycosylated N-terminal Domain of Chondromodulin-I2011

    • Author(s)
      J.Kondo, et al.
    • Journal Title

      J.Bone Miner.Metab.

      Volume: 29 Pages: 23-30

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Positively Charged Domain Located Downstream of PIP Box, Together with TD Amino Acids within PIP Box, is Important for CRL4^<Cdt2> -mediated Proteolysis2011

    • Author(s)
      M.Michishita, et al.
    • Journal Title

      Gene to Cells

      Volume: 16 Pages: 12-22

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] How Coenzyme B12-dependent Ethanolamine Ammonialyase Deals with Both Enantiomers of 2-Amino-1-propanol as Substrates : Structure-based Rationalization2011

    • Author(s)
      N.Shibata, et al.
    • Journal Title

      Biochemistry

      Volume: 50 Pages: 591-598

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Concerto Catalysis. Harmonising [NiFe] Hydrogenase and NiRu Model Catalysts2010

    • Author(s)
      K. Ichikawa, K. Nonaka, T. Matsumoto,B. Kure, K-S. Yoon, Y. Higuchi, T. Yagi, S. Ogo
    • Journal Title

      Concerto Catalysis. Harmonising [NiFe] Hydrogenase and NiRu Model Catalysts

      Volume: 39 Issue: 12 Pages: 2993-2994

    • DOI

      10.1039/b926061g

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystal Structure Analysis of Bacillus subtilis Ferredoxin-NADP+ Oxidoreductase and the Structural Basis for Its Substrate Selectivity2010

    • Author(s)
      H. Komori, D. Seo, T. Sakurai and Y. Higuchi
    • Journal Title

      Protein Science

      Volume: 19(12) Issue: 12 Pages: 2279-2290

    • DOI

      10.1002/pro.508

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Cytochrome c polymerization by successive domain swapping at the C-terminal helix2010

    • Author(s)
      S. Hirota, Y. Hattori, S. Nagao, M. Taketa, H. Komori, H. Kamikubo, Z. Wang, I. Takahashi, S. Negi, Y. Sugiura, M. Kataoka, Y. Higuchi
    • Journal Title

      Pro. Natl. Acad. Sci

      Volume: 107(29) Issue: 29 Pages: 12854-12859

    • DOI

      10.1073/pnas.1001839107

    • NAID

      120005716875

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystal Structures of Ethanolamine Ammonia-lyase complexed with Coenzyme B_12 Analogs and Substrates2010

    • Author(s)
      N. Shibata, H. Tamagaki, N. Hieda, K. Akita, H. Komori, Y. Shomura, S. Terawaki, K. Mori, N. Yasuoka, Y. Higuchi, and T. Toraya
    • Journal Title

      J. Biol. Chem

      Volume: 285 (34) Issue: 34 Pages: 26484-26493

    • DOI

      10.1074/jbc.m110.125112

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure and Molecular Evolution of Multicopper Blue Proteins2010

    • Author(s)
      H. Komori and Y. Higuchi
    • Journal Title

      BIOMOLECULAR CONCEPTS

      Volume: 1 Issue: 1 Pages: 31-40

    • DOI

      10.1515/bmc.2010.004

    • Related Report
      2012 Final Research Report 2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Enzymatic Synthesis of Nylon-6 units in Organic Solvent Contained Low-water: Structural Requirement of 6-aminohexanoate-dimer Hydrolase for Efficient Amide Synthesis2010

    • Author(s)
      Y. Kawashima, K. Yasuhira, N. Shibata,Y Matsuura, Y. Tanaka, M. Taniguchi, Y. Miyoshi, M. Takeo, D. Kato, Y. Higuchi and S. Negoro
    • Journal Title

      J. Mol. Cat

      Volume: B64 Issue: 1-2 Pages: 81-88

    • DOI

      10.1016/j.molcatb.2010.02.006

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] The PHCCEx Domain of Tiam1/2 is a Novel Protein- and Membrane-binding Module2010

    • Author(s)
      S. Terawaki, K. Kitano, T. Mori, Y. Zhai, Y. Higuchi, N. Itoh, T. Watanabe, K. Kaibuchi and T. Hakoshima
    • Journal Title

      EMBO J

      Volume: 29 Issue: 1 Pages: 236-250

    • DOI

      10.1038/emboj.2009.323

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] X-ray Crystallographic Analysis of the 6-aminohexanoate Cyclic Dimer Hydrolase: Catalytic Mechanism and Evolution of an Enzyme Responsible for Nylon-6 Byproduct Degradation2010

    • Author(s)
      K. Yasuhira, N. Shibata, G. Mongami, Y. Uedo, Y. Atsumi, Y. Kawashima, A. Hibino, Y. Tanaka, Y-H. Lee, D. Kato, M. Takeo, Y. Higuchi, and S. Negoro
    • Journal Title

      J. Biol. Chem

      Volume: 285 Issue: 2 Pages: 1239-1248

    • DOI

      10.1074/jbc.m109.041285

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Purification, Crystallization and Preliminary X-ray Analysis of the Dissimilatory Sulfite Reductase from Desulfovibrio vulgaris Miyazaki F2010

    • Author(s)
      H. Ogata, Y. Shomura, A.G. Agrawal, A.P. Kaur, W. Gartner, Y. Higuchi and W. Lubitz
    • Journal Title

      Acta Crystallogr.

      Volume: F66 Issue: 11 Pages: 1470-1472

    • DOI

      10.1107/s1744309110033191

    • Related Report
      2012 Final Research Report 2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and Preliminary X-ray Analysis of Dimeric and Trimeric Cytochromes c from Horse Heart2010

    • Author(s)
      M. Taketa, H. Komori, Y. Hattori, S. Nagao, S. Hirota and Y. Higuchi
    • Journal Title

      Acta Crystallogr.

      Volume: F66 Issue: 11 Pages: 1477-1479

    • DOI

      10.1107/s1744309110034913

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Expression, Crystallization and Preliminary X-ray Crystallographic Study of Ethanolamine Ammonia-lyase from Escherichia coli2010

    • Author(s)
      N. Shibata, H. Tamagaki, S. Ohtsuki, N. Hieda, K. Akita, H. Komori, Y. Shomura, S. Terawaki, T. Toraya, N. Yasuoka and Y. Higuchi
    • Journal Title

      Acta Crystallogr.

      Volume: F66 Issue: 6 Pages: 709-711

    • DOI

      10.1107/s1744309110014478

    • Related Report
      2012 Final Research Report 2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and Preliminary X-ray Analysis of NADH:rubredoxin Oxidoreductase from Clostridium acetobutylicum2010

    • Author(s)
      K. Nishikawa, Y. Shomura, S. Kawasaki, Y. Niimura and Y. Higuchi
    • Journal Title

      Acta Crystallogr

      Volume: F66 Issue: 1 Pages: 23-25

    • DOI

      10.1107/s1744309109047162

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and Preliminary X-ray Studies of Ferredoxin-NADP+ Oxidoreductase Encoded by Bacillus subtilis yumC2010

    • Author(s)
      H. Komori, D. Seo, T. Sakurai, and Y. Higuchi
    • Journal Title

      Acta Crystallogr

      Volume: F66 Issue: 3 Pages: 301-303

    • DOI

      10.1107/s1744309110000151

    • NAID

      120002086442

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Enzymatic Synthesis of Nylon-6 units in Organic Solvent Contained Low-water : Structural Requirement of 6-aminohexanoate-dimer Hydrolase for Efficient Amide Synthesis2010

    • Author(s)
      Y.Kawashima, et al.
    • Journal Title

      J Mol.Cat.B

      Volume: 64 Pages: 81-88

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal Structures of Ethanolamine Ammonia-lyase complexed with Coenzyme B_<12> Analogs and Substrates2010

    • Author(s)
      N.Shibata, et al.
    • Journal Title

      J Biol.Chem.

      Volume: 285 Pages: 26484-26493

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Cytochrome c polymerization by successive domain swapping at the C-terminal helix2010

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

      Proc.Natl.Acad.Sci.

      Volume: 107 Pages: 12854-12859

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystallization and Preliminary X-ray Analysis of Dimeric and Trimeris Cytochromes c from Horse Heart2010

    • Author(s)
      M.Taketa, et al.
    • Journal Title

      Acta Crystallogr.

      Volume: F66 Pages: 1477-1479

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Crystal Structure Analysis of Bacillus subtilis Ferredoxin-NADP^+ Oxid oreductase and the Structural Basis for Its Substrate Selectivity2010

    • Author(s)
      H.Komori, et al.
    • Journal Title

      Protein Science

      Volume: 19 Pages: 2279-2290

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Presentation] Structural Study of O2-Tolerant [NiFe] Hydrogenase2012

    • Author(s)
      Y. Higuchi
    • Organizer
      The 2nd International Conference on MEXT Project of Integrated Research on Chemical Synthesis
    • Place of Presentation
      名古屋大学(愛知)
    • Year and Date
      2012-12-11
    • Related Report
      2012 Final Research Report
  • [Presentation] [NiFe]ヒドロゲナーゼの酸素耐性機構の解明 -放射光X線利用による精密構造化学-2012

    • Author(s)
      樋口芳樹
    • Organizer
      日本農芸化学会関西支部 第477回講演会
    • Place of Presentation
      神戸大学(兵庫)
    • Year and Date
      2012-12-01
    • Related Report
      2012 Final Research Report
  • [Presentation] [NiFe]ヒドロゲナーゼ成熟化因子HypE,HypFのX線結晶構造解析2012

    • Author(s)
      庄村康人,樋口芳樹
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      名古屋大学(愛知)
    • Year and Date
      2012-09-24
    • Related Report
      2012 Final Research Report
  • [Presentation] 酸素耐性[ NiFe]ヒドロゲナーゼの結晶構造解析2012

    • Author(s)
      庄村康人,尹基石,西原宏史,樋口芳樹
    • Organizer
      第12回日本蛋白質科学会年会
    • Year and Date
      2012-06-22
    • Related Report
      2012 Final Research Report
  • [Presentation] Computer-simulations Based Design of Nylonoligomer Hydrolase2012

    • Author(s)
      Y.Shigeta, K. Kamiya, T. Baba, T. Matsui, M. Boero , N. Shibata,Y. Higuchi and S. Negoro
    • Organizer
      3rd Symposium on Enzymes & Biocatalysis
    • Place of Presentation
      Xian (China)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Polymerization and Peroxidase Activity Enhancement of Cytochrome c by Successive Domain Swapping at the C-Terminal Helix2012

    • Author(s)
      S. Hirota, Y. Hattori, Z. Wang, S. Nagao, M. Taketa, H. Komori, H. Kamikubo, T. Matsuo, I. Takahashi, S. Negi, Y. Sugiura, M. Kataoka, Y. Higuchi
    • Organizer
      IEEE International Conference on Computational Photography
    • Place of Presentation
      Seattle (USA)
    • Related Report
      2012 Annual Research Report
  • [Presentation] 好熱菌由来シトクロムc-552 2量体の構造と熱安定性2012

    • Author(s)
      林有吾,長尾聡,大須賀久織,小森博文,樋口芳樹,廣田俊
    • Organizer
      第39回生体分子科学討論会
    • Place of Presentation
      東北大学(宮城)
    • Related Report
      2012 Annual Research Report
  • [Presentation] ドメインスワッピングによるミオグロビン二量体の形成2012

    • Author(s)
      長尾 聡,宇仁武史,山田卓矢,大須賀久織,庄村康人,今井清博,樋口芳樹,廣田 俊
    • Organizer
      第39回生体分子科学討論会
    • Place of Presentation
      東北大学(宮城)
    • Related Report
      2012 Annual Research Report
  • [Presentation] 微小重力環境下でのナイロン分解酵素の高品質結晶生成の実例と今後の取り組みについて2012

    • Author(s)
      樋口芳樹,柴田直樹,根来誠司
    • 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(愛知)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 酸素耐性[ NiFe]ヒドロゲナーゼの結晶構造解析2012

    • Author(s)
      庄村 康人,尹 基石,西原 宏史,樋口 芳樹
    • 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(愛知)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Polymerization and Peroxidase Activity Enhancement of Cytochrome c by Successive Domain Swapping at the C-Terminal Helix2012

    • Author(s)
      S. Hirota, Y. Hattori, Z. Wang, S. Nagao, M. Taketa, H. Komori, H. Kamikubo, T. Matsuo, I. Takahashi, S. Negi, Y. Sugiura, M. Kataoka, Y. Higuchi
    • Organizer
      International Conference on Porphyrins and Phthalocyanins
    • Place of Presentation
      Pusan (Korea)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] ヒト由来ヒスチジンデカルボキシラーゼの基質特異性と触媒機構の研究2012

    • Author(s)
      新田陽子,小森博文,樋口芳樹,植野洋志
    • Organizer
      日本生物高分子学会2012年度年会
    • Place of Presentation
      カレッジプラザ(秋田)
    • Related Report
      2012 Annual Research Report
  • [Presentation] [NiFe]ヒドロゲナーゼ成熟化因子HypE,HypFのX線結晶構造解析2012

    • Author(s)
      庄村 康人,尹 基石,西原 宏史,樋口 芳樹
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      名古屋大学(愛知)
    • Related Report
      2012 Annual Research Report
  • [Presentation] An attempt to solve the ultra-high resolution crystal structures of nylon-oligomer hydrol ases using the crystals grown in space2012

    • Author(s)
      Y. Higuchi, N. Shibata, K. Nagai, Y. Kawashima and S. Negoro
    • Organizer
      14th International Conference on the Crystallization of Biological Macromolecules
    • Place of Presentation
      Huntsville (USA)
    • Related Report
      2012 Annual Research Report
  • [Presentation] X 線照射によるマルチ銅活性中心の構造変化2012

    • Author(s)
      小森博文,片岡邦重,櫻井武,宮崎健太郎,樋口芳樹
    • Organizer
      平成24年度日本結晶学会年会
    • Place of Presentation
      東北大学(宮城)
    • Related Report
      2012 Annual Research Report
  • [Presentation] Wnt シグナル伝達経路で機能するDIX ドメインを介した相互作用の構造生物学2012

    • Author(s)
      勝谷拓也,寺脇慎一,柴田直樹,山本英樹,Marc Fiedler ,Mariann Bienz,菊池 章,樋口芳樹
    • Organizer
      平成24年度日本結晶学会年会
    • Place of Presentation
      東北大学(宮城)
    • Related Report
      2012 Annual Research Report
  • [Presentation] [NiFe]ヒドロゲナーゼの酸素耐性機構の解明 -放射光X線利用による精密構造化学-2012

    • Author(s)
      樋口芳樹
    • Organizer
      日本農芸化学会関西支部 第477回講演会
    • Place of Presentation
      神戸大学(兵庫)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Structural Study of O2-Tolerant [NiFe] Hydrogenase2012

    • Author(s)
      Y. Higuchi
    • Organizer
      The 2nd International Conference on MEXT Project of Integrated Research on Chemical Synthesis
    • Place of Presentation
      名古屋大学(愛知)
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Catalytic cycle of cytochrome-c3 hydrogenase, a [NiFe]-hydrogenase2012

    • Author(s)
      八木達彦,樋口芳樹
    • Organizer
      第85回日本生化学会大会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Related Report
      2012 Annual Research Report
  • [Presentation] 酸素耐性膜結合型[NiFe]ヒドロゲナーゼのX線結晶構造解析-水素エネルギー利用に向けた基礎科学的研究 -2011

    • Author(s)
      八木達彦,樋口芳樹
    • Organizer
      関西サイエンスフォーラム
    • Place of Presentation
      福岡国際会議場(福岡)
    • Year and Date
      2011-11-29
    • Related Report
      2012 Final Research Report
  • [Presentation] 酸素耐性膜結合型[NiFe]ヒドロゲナーゼのX線結晶構造解析-水素エネルギー利用に向けた基礎科学的研究 -2011

    • Author(s)
      樋口芳樹
    • Organizer
      関西サイエンスフォーラム
    • Place of Presentation
      リーガロイヤルNCB(大阪)
    • Year and Date
      2011-11-29
    • Related Report
      2012 Final Research Report
  • [Presentation] 酸素耐性膜結合型[NiFe]ヒドロゲナーゼのX線結晶構造解析-水素エネルギー利用に向けた基礎科学的研究-2011

    • Author(s)
      樋口芳樹
    • Organizer
      関西サイエンスフォーラム
    • Place of Presentation
      リーガロイヤルNCB(大阪府)(招待講演)
    • Year and Date
      2011-11-29
    • Related Report
      2011 Annual Research Report
  • [Presentation] 翻訳終結因子RF3のX線結晶解析2011

    • Author(s)
      木平清人,樋口芳樹等
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      北海道大学(北海道)
    • Year and Date
      2011-11-24
    • Related Report
      2012 Final Research Report
  • [Presentation] ゼータサイザーでタンパク質のオリゴマー化を解析する2011

    • Author(s)
      樋口芳樹
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      北海道大学(北海道)
    • Year and Date
      2011-11-24
    • Related Report
      2012 Final Research Report
  • [Presentation] ゼータサイザーでタンパク質のオリゴマー化を解析する2011

    • Author(s)
      樋口芳樹
    • Organizer
      日本結晶学会年会
    • Place of Presentation
      北海道大学(北海道)(招待講演)
    • Year and Date
      2011-11-24
    • Related Report
      2011 Annual Research Report
  • [Presentation] マルチ銅酸化酵素の構造解析2011

    • Author(s)
      小森博文, 等
    • Organizer
      第84回日本生化学会大会
    • Place of Presentation
      京都国際会議場(京都府)
    • Year and Date
      2011-09-23
    • Related Report
      2011 Annual Research Report
  • [Presentation] Structural study of the O2-tolerant [NiFe] hydrogenase2011

    • Author(s)
      Y. Shomura, Y. Higuchi et al.
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学(兵庫県)
    • Year and Date
      2011-09-17
    • Related Report
      2012 Final Research Report
  • [Presentation] Structural study ofthe O_2-tolerant [NiFe] hydrogenase2011

    • Author(s)
      Y.Shomura, et al
    • Organizer
      第49回日本生物物理学会年会
    • Place of Presentation
      兵庫県立大学(兵庫県)
    • Year and Date
      2011-09-17
    • Related Report
      2011 Annual Research Report
  • [Presentation] シトクロムc-552の多量体生成と二量体構造2011

    • Author(s)
      林有吾, 等
    • Organizer
      第5回バイオ関連化学シンポジウム
    • Place of Presentation
      つくば国際会議場(茨城県)
    • Year and Date
      2011-09-14
    • Related Report
      2011 Annual Research Report
  • [Presentation] Crystal structure analysis of release factor 32011

    • Author(s)
      K. Kihira, Y. Higuchi et al.
    • Organizer
      XXII Congress and General Assembly of International Union of Crystallography
    • Place of Presentation
      Madrid(Spain)
    • Year and Date
      2011-08-28
    • Related Report
      2012 Final Research Report
  • [Presentation] Crystal structure analysis of release factor 32011

    • Author(s)
      K.Kihira, et al
    • Organizer
      XXII Congress and General Assembly of International Union of Crystallography
    • Place of Presentation
      Madrid (Spain)
    • Year and Date
      2011-08-28
    • Related Report
      2011 Annual Research Report
  • [Presentation] Primer design for cDNA synthesis based on the crystal structure2011

    • Author(s)
      N.Shibata, Y.Higuchi
    • Organizer
      XXII Congress and General Assembly of Intemational Union of Crystallography
    • Place of Presentation
      Madrid (Spain)
    • Year and Date
      2011-08-27
    • Related Report
      2011 Annual Research Report
  • [Presentation] ウマシトクロムcおよび緑膿菌シトクロムc_<551>の多量体形成2011

    • Author(s)
      廣田俊, 等
    • Organizer
      第38回生体分子科学討論会
    • Place of Presentation
      茨城大学(茨城県)
    • Year and Date
      2011-06-23
    • Related Report
      2011 Annual Research Report
  • [Presentation] Can we elucidate the reaction mechanism of [NiFe] hydrogenase by neutron diffraction study? Neutron Structural Biology -Hydration Structure in Proteins-2011

    • Author(s)
      Y. Higuchi
    • Place of Presentation
      日本原子力開発研究機構(茨城県)
    • Year and Date
      2011-03-04
    • Related Report
      2012 Final Research Report
  • [Presentation] 中性子構造化学でヒドロゲナーゼの水素分子活性化機構は理解できるか?2011

    • Author(s)
      樋口芳樹
    • Organizer
      中性子構造生物学およびタンパク質水和構造に関するシンポジウム
    • Place of Presentation
      水戸
    • Year and Date
      2011-03-04
    • Related Report
      2010 Annual Research Report
  • [Presentation] Structural Basis for the Reaction Mechanism of Dissimilatory Sulfite Reductase2011

    • Author(s)
      Shomura Y. Higuchi et al.
    • Organizer
      International Symposium on Chemistry of Reductases IV
    • Place of Presentation
      名古屋大学(愛知県)
    • Related Report
      2012 Final Research Report
  • [Presentation] Crystallization and X-ray Analysis of ATP-sulfurylase from Sulfate-reducing Bacteria2011

    • Author(s)
      M. Taketa, Y. Shomura and Y. Higuchi
    • Organizer
      International Symposium on Chemistry of Reductases IV
    • Place of Presentation
      名古屋大学(愛知県)
    • Related Report
      2012 Final Research Report
  • [Presentation] Structural Basis for the Reaction Mechanism of Dissimilatory Sulfite Reductase2011

    • Author(s)
      Y.Shomura, et al.
    • Organizer
      International Symposium on Chemistry of Reductases IV
    • Place of Presentation
      名古屋
    • Related Report
      2010 Annual Research Report
  • [Presentation] Crystallization and X-ray Analysis of ATP-sulfurylase from Sulfate-reducing Bacteria2011

    • Author(s)
      M.Taketa, et al.
    • Organizer
      International Symposium on Chemistry of Reductases IV
    • Place of Presentation
      名古屋
    • Related Report
      2010 Annual Research Report
  • [Presentation] Enzymatic Degradation and Synthesis of Nylon-6 Related Compounds.2010

    • Author(s)
      S.Negoro, et al.
    • Organizer
      International Symposium on BioPolymers 2010
    • Place of Presentation
      Stuttgart
    • Year and Date
      2010-10-04
    • Related Report
      2010 Annual Research Report
  • [Presentation] Strusctural Analysis of Releasae Factor 32010

    • Author(s)
      K. Kihira, Y. Higuchi et al.
    • Organizer
      日本生物物理学会第48回年会
    • Place of Presentation
      日本生物物理学会第48回年会
    • Year and Date
      2010-09-22
    • Related Report
      2012 Final Research Report
  • [Presentation] Cytochrome c Polymerization by Successive Domain Swapping at the C-terminal Helix2010

    • Author(s)
      S.Hirota, et al.
    • Organizer
      日本生物物理学会第48回年会
    • Place of Presentation
      仙台
    • Year and Date
      2010-09-22
    • Related Report
      2010 Annual Research Report
  • [Presentation] ナイロンオリゴマ-分解酵素の精密構造解析2010

    • Author(s)
      樋口芳樹
    • Organizer
      第10回日本蛋白質科学会年会
    • Place of Presentation
      札幌
    • Year and Date
      2010-06-18
    • Related Report
      2010 Annual Research Report
  • [Presentation] 膜結合型[NiFe]ヒドロゲナーゼのX線結晶構造解析2010

    • Author(s)
      庄村康人,樋口芳樹等
    • Organizer
      2010 年度日本結晶学会年会
    • Place of Presentation
      大阪大学(大阪府)
    • Related Report
      2012 Final Research Report
  • [Presentation] Improved Technologies for High-resolution X-ray Crystallography2010

    • Author(s)
      H. Tanaka, Y. Higuchi et al.
    • Organizer
      The 10th Conference of the Asian Crystallographic Association
    • Place of Presentation
      Pusan(Korea)
    • Related Report
      2012 Final Research Report
  • [Presentation] Basis for the Lack of Stereospecificity in Coenzyme B_<12>-dependent Ethanolamine ammonia-lyase2010

    • Author(s)
      N.Shibata, et al.
    • Organizer
      The 10th Conference of the Asian Crystallographic Association
    • Place of Presentation
      Pusan
    • Related Report
      2010 Annual Research Report
  • [Presentation] The Role of the π-electron System in Regulation of Reduction Potentials of Tetraheme Cytochrome c_32010

    • Author(s)
      H.Akutsu, et al.
    • Organizer
      The 10th Conference of the Asian Crystallographic Association
    • Place of Presentation
      Pusan
    • Related Report
      2010 Annual Research Report
  • [Presentation] Improved Technologies for High-resolution X-ray Crystallography2010

    • Author(s)
      H.Tanaka, et al.
    • Organizer
      The 10th Conference of the Asian Crystallographic Association
    • Place of Presentation
      Pusan
    • Related Report
      2010 Annual Research Report
  • [Presentation] 枯草菌由来フェレドキシン-NADPH還元酵素のX線結晶構造解析2010

    • Author(s)
      小森博文, et al.
    • Organizer
      2010年度日本結晶学会年会
    • Place of Presentation
      吹田
    • Related Report
      2010 Annual Research Report
  • [Presentation] 膜結合型[NiFe]ヒドロゲナーゼのX線結晶構造解析2010

    • Author(s)
      庄村康人, et al.
    • Organizer
      2010年度日本結晶学会年会
    • Place of Presentation
      吹田
    • Related Report
      2010 Annual Research Report
  • [Presentation] B12-補酵素関与エタノールアミアンモニアリアーゼの立体構造に基づく立体化学経路の解明2010

    • Author(s)
      柴田直樹, et al.
    • Organizer
      2010年度日本結晶学会年会
    • Place of Presentation
      吹田
    • Related Report
      2010 Annual Research Report
  • [Book] 膜結合型ヒドロゲナーゼの酸素耐性機構の解明,生物物理2013

    • Author(s)
      庄村康人,樋口芳樹
    • Related Report
      2012 Final Research Report
  • [Book] ヒドロゲナーゼの新規酸素耐性機構-膜結合型[NiFe]ヒドロゲナーゼ,化学2012

    • Author(s)
      庄村康人,樋口芳樹
    • Related Report
      2012 Final Research Report
  • [Book] 酸素耐性ヒドロゲナーゼの構造化学的研究-酵素分子に見出された活性保護機構-,燃料電池2012

    • Author(s)
      庄村康人,樋口芳樹
    • Related Report
      2012 Final Research Report
  • [Book] Spring-8利用者情報誌[4Fe-3S]クラスターによる[NiFe]ヒドロゲナーゼの酸素耐性機構の構造基盤2012

    • Author(s)
      庄村康人,樋口芳樹
    • Related Report
      2012 Final Research Report
  • [Book] SPring-8 Research Frontier Crystal structure of O2-tolerant [NiFe] hydrogenase reveals the mechanism of O2-tolerance attributable to a redox-dependent conformational change of [4Fe-3S] cluster2012

    • Author(s)
      Y. Shomura and Y. Higuchi
    • Related Report
      2012 Final Research Report
  • [Book] シトクロムc ポリマー:水溶性球状タンパク質に見出された多量化機構2012

    • Author(s)
      廣田俊, 樋口芳樹
    • Publisher
      日本結晶学会誌
    • Related Report
      2012 Final Research Report
  • [Book] Pring-8 Research Frontiers2010 Structures of Dimeric and Trimeric Cytochrome c and Its Polymerization Mechanism2011

    • Author(s)
      S. Hirota and Y. Higuchi
    • Related Report
      2012 Final Research Report
  • [Book] Structural and Functional Features of Hydrogenase Enzymes, Molecular Solar Biofuels2011

    • Author(s)
      W. Lubitz, H. Ogata, E. Reijerse and Y. Higuchi
    • Publisher
      published by Royal Society Chemistry
    • Related Report
      2012 Final Research Report
  • [Book] 新規の鉄-硫黄クラスターが生み出すヒドロゲナーゼの酸素耐性機構2011

    • Author(s)
      庄村康人,樋口芳樹
    • Publisher
      ライフサイエンス新着レビュー
    • URL

      http://first.lifesciencedb.jp/archives/3775

    • Related Report
      2012 Final Research Report
  • [Book] 構造生物学2010

    • Author(s)
      樋口芳樹,中川敦史
    • Total Pages
      253
    • Publisher
      共立出版
    • Related Report
      2012 Final Research Report
  • [Book] 構造生物学-原子構造からみた生命現象の営み2010

    • Author(s)
      樋口芳樹, 中川敦史
    • Total Pages
      253
    • Publisher
      共立出版株式会社
    • Related Report
      2010 Annual Research Report

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Published: 2010-08-23   Modified: 2019-07-29  

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