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Conversion of Organofluorine Compounds with Microbial Enzymes : Mechanistic Analysis of the Enzyme Reactions and Their Application to Production of Useful Compounds and Bioremediation of Environments

Research Project

Project/Area Number 17360397
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Biofunction/Bioprocess
Research InstitutionKyoto University

Principal Investigator

KURIHARA Tatsuo  Kyoto University, Inst. Chem. Res, Associate Professor (70243087)

Co-Investigator(Kenkyū-buntansha) ESAKI Nobuyoshi  Kyoto Univ., Inst. Chem. Res, Professor (50135597)
MIHARA Hisaaki  Kyoto Univ., Inst. Chem. Res, Assistant Professor (30324693)
Project Period (FY) 2005 – 2007
Project Status Completed (Fiscal Year 2007)
Budget Amount *help
¥16,840,000 (Direct Cost: ¥15,700,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2007: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2006: ¥4,600,000 (Direct Cost: ¥4,600,000)
Fiscal Year 2005: ¥7,300,000 (Direct Cost: ¥7,300,000)
Keywordsorganohalogen compound / organofluorine compound / dehalogenation / dehalogenase / fluoroacetate dehalogenase / 還元的脱ハロゲン化酵素
Research Abstract

1. Fluoroacetate dehalogenase catalyzes the hydrolytic defluorination of fluoroacetate to produce glycolate. D104 of the enzyme nucleophilically attacks the α-carbon atom of the substrate to release the fluoride ion and form an ester intermediate, in which the substrate-derived moiety is covalently bound to the enzyme. The intermediate is hydrolyzed by a water molecule activated by H271 to release glycolate and regenerate D104. X-ray crystallographic analysis of the wild-type enzyme, the D104N mutant enzyme complexed with fluoroacetate (Michaelis complex), and the 11271A mutant enzyme complexed with chloroacetate (ester intermediate) supported the proposed reaction mechanism. The carboxylate group of the substrate was bound to H149, W150, Y212, R105, and R108, and the fluorine atom was bound to R108. We found that the W150F mutant enzyme does not act on fluoroacetate, whereas the activity of the mutant toward chloroacetate was similar to that of the wild-type enzyme, indicating that W150 is specifically required for the defluorination.
2. We obtained an anaerobic bacterium belonging to the genus Sulfurospirillum by enrichment culture with 1,1,1-trichloro-2,2,2-trifluoroethane (Freon 113a) as an electron acceptor. By enrichment culture with retrachlorcethene as an electron acceptor, we obtained an anaerobic bacterium whose 16S rRNA sequence shows 98% identity with that of an uncultured bacterium.
3. We constructed a recombinant Escherichia coli strain producing 2-chloroacrylate reductase from Burkholderia sp. WS and glucose dehydrogenase, which serves as an NADPH regeneration enzyme. (S)-2-Chloropropionate, a precursor for the synthesis of herbicides, was produced by asymmetric reduction of 2-chloroacrylate by using the recombinant E. coli cells. This method was superior to the conventional method (optical resolution) in the yield of the product.

Report

(4 results)
  • 2007 Annual Research Report   Final Research Report Summary
  • 2006 Annual Research Report
  • 2005 Annual Research Report
  • Research Products

    (33 results)

All 2008 2007 2006 2005

All Journal Article (19 results) (of which Peer Reviewed: 7 results) Presentation (14 results)

  • [Journal Article] Bacterial hydrolytic dehalogenases and related enzymes: Occurrences, reaction mechanisms, and applications2008

    • Author(s)
      Kurihara, Tatsuo, et. al.
    • Journal Title

      Chem. Rec. 8

      Pages: 67-74

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] Pfoduction of (S)-2-chloropropionate by asymmetric reduction of 2-chloroacrylate with 2-haloacrylate reductase coupled with glucose dehydrogenase2008

    • Author(s)
      Kurata, Atsushi, et. al.
    • Journal Title

      J. Biosci. Bioeng. 105

      Pages: 429-431

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] Bacterial hydrolytic dehalogenases and related enzymes : Occurrences, reaction mechanisms, and applications2008

    • Author(s)
      Kurihara, Tatsuo, et. al.
    • Journal Title

      Chem. Rec 8

      Pages: 67-74

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] Production of (S)-2-chloropropionate by asymmetric reduction of 2-cialoroacrylate with 2-haloacrylate reductase coupled with glucose dehydrogenase2008

    • Author(s)
      Kurata, Atsushi, et. al.
    • Journal Title

      J. Biosci. Bioeng 105

      Pages: 429-431

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] Bacterial hydrolytic dehalogenases and related enzymes: Occurrences, reaction mechanisms, and applications.2008

    • Author(s)
      Kurihara, Tatsuo, et. al.
    • Journal Title

      Chem. Rec. 8

      Pages: 67-74

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Production of (S)-2-chloropropionate by asymmetric reduction of 2-chloroacrylate with 2-haloacrylate reductase coupled with glucose dehydrogenase2008

    • Author(s)
      Kurata, Atsushi, et. al.
    • Journal Title

      J. Biosci. Bioeng. (In press)

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Expression, purification and preliminary X-ray characterization of DL-2-haloacid dehalogenase from Methylobacterium sp. CPA12007

    • Author(s)
      Omi, Rie, et. al.
    • Journal Title

      Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 63

      Pages: 586-589

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] Expression, purification and preliminary X-ray characterization of DL-2-haloacid dehalogenase from Methylobacterium sp. CPA12007

    • Author(s)
      Omi, Rie, et. al.
    • Journal Title

      Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commllti 63

      Pages: 586-589

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Journal Article] Expression, purification and preliminary X-ray characterization of DL-2-haloacid dehalogenase from Methylobacterium sp. CPA1.2007

    • Author(s)
      Omi, Rie, et. al.
    • Journal Title

      Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun. 63

      Pages: 586-589

    • Related Report
      2007 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Proteomic Studies of Psychrophilic Microorganisms2007

    • Author(s)
      Kurihara, Tatsuo et al.
    • Journal Title

      Psychrophiles : from Biodiversity to Biotechnology (In press)

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Mechanism of the reaction catalyzed by DL-2-haloacid dehalogenase as determined from kinetic isotope effects2006

    • Author(s)
      Papajak, Ewa, et. al.
    • Journal Title

      Biochemistry 45

      Pages: 6012-6017

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
    • Peer Reviewed
  • [Journal Article] Mechanism of the Reaction Catalyzed by DL-2-Haloacid Dehalogenase as Determined from Kinetic Isotope Effects2006

    • Author(s)
      Papajak, Ewa et al.
    • Journal Title

      Biochemistry 45・19

      Pages: 6012-6017

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Enzymatic Synthesis of L-Pipecolic Acid by Δ^1-Piperideine-2-carboxylate Reductase from Pseudomonas putida2006

    • Author(s)
      Muramatsu, Hisashi et al.
    • Journal Title

      Biosci. Biotechnol. Biochem. 70・9

      Pages: 2296-2298

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Cold-adaptation Mechanism of Psychrotrophic Bacteria and Their Applications2006

    • Author(s)
      Esaki, Nobuyoshi et al.
    • Journal Title

      Proceedings of International Symposium on Extremophiles and Their Applications

      Pages: 44-48

    • NAID

      130004598814

    • Related Report
      2006 Annual Research Report
  • [Journal Article] Cold-adaptation mechanism of psychrotrophic bacteria and their applications2006

    • Author(s)
      Esaki, Nobuyoshi et al.
    • Journal Title

      Proceedings of International Symposium on Extremophiles and their Applications (In press)

    • NAID

      130004598814

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Mechanism of the reaction catalyzed by DL-2-haloacid dehalogenase from kinetic isotope effects2006

    • Author(s)
      Papajak, Ewa et al.
    • Journal Title

      Biochemistry (In press)

    • Related Report
      2005 Annual Research Report
  • [Journal Article] 2-Haloacrylate reductase, a novel enzyme of the medium chain dehydrogenase/reductase superfamily that catalyzes the reduction of a carbon-carbon double bond of unsaturated organohalogen compounds2005

    • Author(s)
      Kurata, Atsushi et al.
    • Journal Title

      J.Biol.Chem. 280・21

      Pages: 20286-20291

    • Related Report
      2005 Annual Research Report
  • [Journal Article] Crystal structures of Δ^1-piperideine-2-carboxylate/Δ^1-pyrroline-2-carboxylate reductase belonging to a new family of NAD(P)H-dependent oxidoreductases : conformational change, substrate recognition, and stereochemistry of the reaction2005

    • Author(s)
      Goto, Masaru et al.
    • Journal Title

      J.Biol.Chem. 280・49

      Pages: 40875-40884

    • Related Report
      2005 Annual Research Report
  • [Journal Article] A new family of NAD(P)H-dependent oxidoreductases distinct from conventional Rossmann-fold proteins2005

    • Author(s)
      Muramatsu, Hisashi et al.
    • Journal Title

      J.Biosci.Bioeng. 99・6

      Pages: 541-547

    • Related Report
      2005 Annual Research Report
  • [Presentation] 2-クロロアクリル酸代謝関連タンパク質の機能解析2007

    • Author(s)
      藤田, 倫代, et. al.
    • Organizer
      日本農芸化学会2007年度大会
    • Place of Presentation
      東京都世田谷区
    • Year and Date
      2007-03-26
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Function of proteins involved in 2-chloroacrylate metabolism2007

    • Author(s)
      Fujita, Michiyo, et. al.
    • Organizer
      Annual Meeting of Japan Society for Bioscience, Biotechnology, and Agrochemistry
    • Place of Presentation
      Setagaya, Tokyo
    • Year and Date
      2007-03-26
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Mechanism of cleavage of carbon-fluorine bond by fluoroacetate dehalogenase from Burkholderia sp. FA12006

    • Author(s)
      実森, 啓二, et. al.
    • Organizer
      Japan-Italy Research Cooperative Program: Japan-Italy Symposium of New Trends in Enzyme Science and Technology
    • Place of Presentation
      愛知県名古屋市
    • Year and Date
      2006-11-15
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Mechanism of cleavage of carbon-fluorine bond by fluoroacetate dehalogenase from Burkholderia sp. FA12006

    • Author(s)
      Jitsumori, Keiji, et. al.
    • Organizer
      Japan-Italy Research Cooperative Program : Japan-Italy Symposium of New Trends in Enzyme Science and Technology
    • Place of Presentation
      Nagoya, Aichi
    • Year and Date
      2006-11-15
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] フルオロ酢酸デハロゲナーゼによる加水分解的脱フッ素に特異的に必要とされるTrp150の機能解析2006

    • Author(s)
      実森, 啓二, et. al.
    • Organizer
      日本農芸化学会2006年度大会
    • Place of Presentation
      京都府京都市
    • Year and Date
      2006-03-27
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] 酵素を用いた不斉還元反応による(S)-2-クロロプロピオン酸の生産2006

    • Author(s)
      倉田, 淳志, et. al.
    • Organizer
      日本農芸化学会2006年度大会
    • Place of Presentation
      京都府京都市
    • Year and Date
      2006-03-27
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Function of Trp 150 required for hydrolytic defluorination by fluoroacetate dehalogenase2006

    • Author(s)
      Jitsumori, Keiji, et. al.
    • Organizer
      Annual Meeting of Japan Society for Bioscience, Biotechnology, and Agrochemistry
    • Place of Presentation
      Kyoto
    • Year and Date
      2006-03-27
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Production of (S)-2-chloropropionate by enzymatic asymmetric reduction2006

    • Author(s)
      Kurata, Atsushi, et. al.
    • Organizer
      Annual Meeting of Japan Society for Bioscience, Biotechnology, and Agrochemistry
    • Place of Presentation
      Kyoto
    • Year and Date
      2006-03-27
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Enzymatic conversion of organohalogen compounds: reaction mechanisms and applications2005

    • Author(s)
      栗原, 達夫, et. al.
    • Organizer
      Pacifichem 2005
    • Place of Presentation
      Honolulu, HI, USA
    • Year and Date
      2005-12-18
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Enzymatic conversion of organohalogen compounds : reaction mechanisms and applications2005

    • Author(s)
      Kurihara, Tatsuo, et. al.
    • Organizer
      Paeifiehem
    • Place of Presentation
      Honolulu, HI, USA
    • Year and Date
      2005-12-18
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Identification of amino acid residues essential for hydrolytic defluorMation by fluoroacetate dehalogenase2005

    • Author(s)
      Jitsumori, Keiji, et. al.
    • Organizer
      The 78o, Annual Meeting of the Japanese Biochemical Society
    • Place of Presentation
      Kobe, Hyogo
    • Year and Date
      2005-11-20
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Identification of amino acid residues essential for hydrolytic defluorination by fluoroacetate dehalogenase2005

    • Author(s)
      実森, 啓二, et. al.
    • Organizer
      第78回 日本生化学会大会
    • Place of Presentation
      兵庫県神戸市
    • Year and Date
      2005-10-20
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] フルオロ酢酸デハロゲナーゼによる加水分解的脱フッ素反応に必須なアミノ酸残基の同定2005

    • Author(s)
      実森, 啓二, et. al.
    • Organizer
      日本農芸化学会関西・中四国・西日本支部合同大会
    • Place of Presentation
      大阪府吹田市
    • Year and Date
      2005-10-01
    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2007 Final Research Report Summary
  • [Presentation] Identification of amino acid residues required for hydrolytic defluorination catalyzed by fluoroacetate dehalogenase2005

    • Author(s)
      Jitsumori, Keiji, et. al.
    • Organizer
      Joint Meeting of Kansai, Chu-shikoku, and Nishi-Nihon Branches of Japan Society for Bioscience, Biotechnology, and Agrochemistry
    • Place of Presentation
      Suite, Osaka
    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2007 Final Research Report Summary

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Published: 2005-04-01   Modified: 2016-04-21  

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