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2002 Fiscal Year Final Research Report Summary

Molecular Mechanism of the Catalytic Function of prenyl Chain Elongating Enzymes Participating in the biosynthesis of Isoprenoid Compounds

Research Project

Project/Area Number 12480169
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Bioorganic chemistry
Research InstitutionTOHOKU UNIVERSITY

Principal Investigator

KOYAMA Tanetoshi  Tohoku University, lnstitute of Multidisciplinary Research for Advanced Materials, Professor, 多元物質科学研究所, 教授 (20089808)

Co-Investigator(Kenkyū-buntansha) YUAN-WEI Zhang  Tohoku University, lnstitute of Maltidisciplinary Research for Advanced Materials, Research Associate, 多元物質科学研究所, 助手 (10302241)
OHYA Norimasa  Yamagata University, Faculty of Science, Lecturer, 理学部, 講師 (40302286)
Project Period (FY) 2000 – 2002
KeywordsPRENYL CHAIN ELONGATION / FARNESYL DIPHOSPHATE / UNDECAPRENYL DIPHOSPHATE / PRENYLTRANSFERASE / ISOPRENOID BIOSYNTHESIS / SUBSTRATE BINDING SITE / ENZYME STRUCTURE / SITE-DIRECTED MUTAGENESIS
Research Abstract

In the biosynthesis of isoprenoid compounds all of the carbon backbones are derived from prenyl diphosphates, which are synthesized by the action of prenyltransferases.
During the last decades the structural genes for many kinds of prenyltransferases catalyzing (E)-type prenyl chain elongation have been identified and characterized. However, no information has been available about the structures of (Z)-prenyl diphosphate syntheses until our isolation of the gene for Micrococcus luteus undecaprenyl diphosphate synthase in 1998. The amino acid sequence of the (Z)-prenyl diphosphate synthase is totally different from those of (E)-prenyl chain elongating enzymes.
The crystal structure of the undecaprenyl diphosphate synthase has been determined at 2.2 A resolution as the first three dimensional structure among cis-prenyl chain elongating enzymes. This enzyme shows a novel protein fold which is completely different from those for the enzymes relating to isoprenoid biosynthesis, having a commo … More n structure "isoprenoid synthase fold". A plausible substrate-binding model of the enzyme has been deduced from the precise three-dimensional structure as well as the data accumulated from site-directed mutagenesis experiments.
We have isolated and characterized the cDNA for the rubber transferaes from Hevea brasiliensis. In viro rubber production using the recombinant enzyme overexpressed in E. coli cells revealed that the Hevea rubber transferase might require some activation factors in the washed bottom particle fraction of Hevea latex for the production of high molecular weight rubber molecules.
Dolichol has an essential role in the biosynthesis of N-linked glycoproteins and glycosylphosphatidylinositol-anchored proteins as the glycosyl carrier lipid in higher organisms. Through the database search for a gene encoding highly conserved regions for cis-prenyl chain elongating enzymes, we have identified a human dehydrodolichyl diphosphate synthase. The mRNA expression levels of the dehydrodolichyl diphosphate synthase in human tissues were analyzed by Northern blotting to show high expressions in testis as well as in kidney. Less

  • Research Products

    (46 results)

All Other

All Publications (46 results)

  • [Publications] M.Nagaki, S.Sato, Y.Maki, T.Nishino, T.Koyama: "Artificial Substrates for Undecaprenyl Diphosphate Synthase from Micrococcus luteus B-P26"J. Mol. Catal. B : Enzymatic. 9・1-3. 33-38 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] T.Koyama, Y.Gotoh, T.Nishino: "Intersubunit Location of the Active Site of Farnesyl Diphosphate Synthase-Reconstitution of Active Enzymes by Hybrid-type Heteromeric Dimers of Site-Directed Mutants"Biochemistry. 39・2. 463-469 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, A.Takaya, Y.Maki, J.Ishibashi, Y.Kato, T.Nishino, T.Koyama: "One-pot Syntheses of the Sex Pheromone Homologs of a Codling Moth, Laspeyresia promonella L."J. Mol. Catal. B : Enzymatic. 10・5. 517-522 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.-W.Zhang, Y.Kharel, T.Koyama: "Overexpression, Purification, and Characterization of Selenomethionyl Farnesyl Diphosphate Synthase of Bacillus stearothermophilus"J. Mol. Catal. B : Enzymatic. 10・6. 623-630 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] K.Hirooka, S.Ohnuma, A.Koike-Takeshita, T.Koyama, T.Nishino: "Mechanism of Product Chain Length Determination for Heptaprenyl Diphosphate Synthase from Bacillus stearothermophilus"Eur. J. Biochem.. 267・14. 4520-4528 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.-W.Zhang, X.-Y.Li, T.Koyama: "Chain Length Determination of Prenyltransferases : Both Heteromeric Subunits of Medium-Chain (E)-Prenyl Diphosphate Synthase are Involved in the Product Chain Length Determination"Biochemistry. 39・41. 12717-12722 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] K.Fujikura, Y.-W.Zhang, H.Yoshizaki, T.Nishino, T.Koyama: "Significance of Asn-77 and Trp-78 in the Catalytic Function of Undecaprenyl Diphosphate Synthase of Micrococcus luteus B-P 26"J. Biochem.. 128・6. 917-922 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, S.Sato, Y.Maki, T.Nishino, T.Koyama: "An Artificial Substrate for Undecaprenyl Diphosphate Synthase from Micrococcus luteus B-P 26"Catal. Commun.. 1・1. 33-35 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] N.Ohya, Y.Tanaka, R.Wititsuwannakul, T.Koyama: "Activity of Rubber Transferase and Rubber Particle Size in Hevea Latex"J. Rubber Research. 3・4. 214-221 (2000)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Fujihashi, Y.-W.Zhang, Y.Higuchi, X.-Y.Koyama, K.Miki: "Crystal Structure of cis-Prenyl Chain Elongating Enzyme, Undecaprenyl Diphosphate Synthase"Proc. Natl. Acad. Sci. U.S.A.. 98・8. 4337-4342 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Kharel, Y.-W.Zhang, M.Fujihashi, K.Miki, T.Koyama: "Identification of Significant Residues for Homoallylic Substrate Binding of Micrococcus luteus B-P 26 Undecaprenyl Diphosphate Synthase"J. Biol. Chem.. 276・30. 28459-28464 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, K.Kimura, H.Kimura, Y.Mak, E.Goto, T.Nishino, T.Koyama: "Artificial Substrates of Medium-Chain Elongation Enzymes, Hexaprenyl-and Heptaprenyl Diphosphate Synthases"Bioorg. Med. Chem. Lett.. 11. 2157-2159 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, H.Yamamoto, A.Takahashi, Y.Maki, J.Ishibashi, T.Nishino, T.Koyama: "Substrate Specificity of Thermostable Farnesyl Diphosphate Synthase with Respect to 4-Alkyl Group Homologs of Isopentenyl Diphosphate"J. Mol. Catal. B : Enzymatic. 17・2. 81-89 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Maki, M.Komabayashi, Y.Gotoh, N.Ohya, H.Hemmi, K.Hirooka, T.Nishino, T.Koyama: "Dramatic Changes in the Substrate Specificities of Prenyltransferases by a Single Amino Acid Substitution"J. Mol. Catal. B : Enzymatic. 19-20. 431-436 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] 槙 雄二, 長岐正彦, 西野徳三, 古山種俊: "有機合成におけるイソプレノイド生合成関連酵素:酵素機能改変と炭素-炭素結合形成ツールとしての有用性と展望"有機合成化学協会誌. 60・8. 783-793 (2002)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] A.Takaya, Y.-W.Zhang, K.Asawatreratanakul, D.Wititsuwannakul, R.Wititsuwannakul, S.Takahashi, T.Kovama: "Cloning, Expression and Characterization of a Functional cDNA Clone Encoding Geranylgeranyl Diphosphate Synthase of Hevea brasiliensis"Biochim. Biophys. Acta.. 1625・2. 214-220 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S.Endo, Y.-W.Zhang, S.Takahashi, T.Koyama: "Identification of Human Dehydrodolichyl Diphosphate Synthase Gene"Biochim. Biophys. Acta.. 1625・3. 291-295 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Kharel, T.Koyama: "Molecular Analysis of cis-Prenyl Chain Elongating Enzymes"Natural Product Reports. 20・1. 111-118 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] S.Takahashi, T.Nishino, T.Koyama: "Isolation and Expression of Paracoccus denitrificans Decaprenyl Diphosphate Synthase Gene for the Production of Ubiquinone-10 in E. coli"Biochem. Engineering J.. 3733・1. 1-8 (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, K.Kuwahara, K.Kimura, J.Kawakami, Y.Miki, S.Ito, N.Morita, T.Nishino, T.Koyama: "Substrate Specificities of Medium-Prenylchain Elongating Enzymes, Hexaprenyl-and Heptaprenyl Diphosphate Synthases"J. Mol. Catal., B : Enzymatic. (in press). (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] K.Fujikura, Y.-W.Zhang, M.Fujihashi, K.Miki, T.Koyama: "Mutational Analysis of Allylic Substrate Binding Site of Micrococuus luteus B-P 26 Undecaprenyl Diphosphate Synthase"Biochemisty. (in press). (2003)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] N.Ohya, T.Koyama: "Chapter 4. Biosynthesis of Natural Rubber and Other Natural Polyisoprenoids"Biopolymers, Polyisoprenoids (Wiley-VCH Verlag GmbH, Weinheim). Volume 2. 37 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.-W.Zhang, T.Koyama: "Chapter 5. Biosynthesis Routes Diverting from Intermediates of Polyisoprenoid Biosynthesis to Related Products of the Metabolism"Biopolymers, Polyisoprenoids (Wiley-VCH Verlag GmbH, Weinheim). Volume 2. 40 (2001)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] M.Nagaki, S.Sato, Y.Maki, T.Nishino, and T.Koyama: "Artificial Substrates for Undecaprenyl Diphosphate Synthase from Micrococcus luteus B-P 26"J.Mol.Catol.B:Enzymatic. 9(1-3). 33-38 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] T.Kovama, Y.Gotoh, and T.Nishino: "Intersubunit Location of the Active Site of Famesyl Diphosphate Synthase-Reconstiuation of Active Enzymes by Hybrid-type Heteromeric Dimers of Site-Directed Mutants"Biochemistry. 39(2). 463-469 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Nagaki, A.Takaya, Y.Maki, J.Ishibashi, Y.Kato, T.Nishino, and T.Koyama: "One-pot Syntheses of the Sex Pheromone Homologs of a Codling Moth, Laspeyresia promonella L"J.Mol.Catal.B:Enzymatic. 10(5). 517-522 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.-W.Zhang, Y.Kharel, and T.Koyama: "0verexpression, Purification, and Characterization of Selenomethionyl Famesy Diphosphate Synthase of Bacillus stearothermophilus"J.Mol.Catal.B:Enzymatic. 10(6). 623-630 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] K.Hirooka, S.0hnuma, A.Koike-Takeshita, T.Koyama, and T.Nishino: "Mechanism of Product Chain Length Determination for Heptaprenyl Diphosphate Synthase from Bacillus stearothermophilus"Eur.J.Biochem.. 267(14). 4520-4528 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.-W.Zhang, X.-Y.Li, and T.Koyama: "Chain Length Determination of Prenyltransferases: Both Heteromeric Suburits of Medium-Chain (E)-Prenyl Diphosphate Synthase are Involved in the Product Chain Length Determination"Biochemistry. 39(41). 12717-12722 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] K,Fujikura, Y.-W.Zhang, H.Yoshizaki, T.Nishino, and T.Koyama: "Significance of Asn-77 and Trp-78 in the Catalytic Function of Undecaprenyl Diphosphate Synthase of Micrococcus luteus B-P 26"J.Biochem.. 128(6). 917-922 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Nagaki, S.Sato,Y.Maki, T.Nishino, and T.Koyama: "An Artificial Substrate for Undecaprenyl Diphosphate Synthase from Micrococcus luteus B-P26"Catal.Commun.. 1(1). 33-35 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] N.Ohya, Y.Tanaka, R.Wititsuwannakul, and T.Koyama: "Activity of Rubber Transferase and Rubber Particle Size in Hevea Latex"J.Rubber Research. 3(4). 214-221 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Fujihashi, Y.-W.Zhang, Y.Higuchi, X.-Y.Li, T.Koyama, and K.Miki: "Crystal Structure of cis-Prenyl Chain Elongating Enzyme, Undecaprenyl Diphosphate Synthase"Proc. Natl. Acad. Sci.,U.S.A.. 98(8). 4337-4342 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.Kharel, Y.-W.Zhang, M.Fujihashi, K.Miki, and T.Koyama: "Identification of Significant Residues for Homoallyic Substrate Binding of Micrococcus luteus B-P 26 Undecaprenyl Diphosphate Synthase"J Biol. Chem.. 276(30). 28459-28464 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Nagaki, K.Kimura, H.Kimura, Y.Maki, E.Goto, T.Nishino, and T.Koyama: "Artificial Substrates of Medium-Chain Elongation Enzymes, Hexaprenyl- and Heptaprenyl Diphosphate Synthases"Bioorg.Med.Chem. Lett.. 11. 2157-2159 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Nagaki, H.Yamamoto, A.Takahashi, Y.Maki, J.Ishibashi, T.Nishino, and T.Koyama: "Substrate Specificity of Thermostable Farnesyl Diphoshate Synthase with Respect to 4-Alkyl Group Homologs of lsopentenyl Diphosphate"J.Mol.Catal.B: Enzymatic.. 17(2). 81-89 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.Maki, M.Komabayashi, Y.Gotoh, N.Ohya, H.Hemmi, K.Hirooka, T.Nishino, and T.Koyama: "Dramatic Changes in the Substrate Specificities of Prenyltransferases by a Single Amino Acid Substitution"J.Mol.Catal.B: Enzymatic. 19-20. 431-436 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.Maki, M.Nagaki, T.Nishino, and T.Koyama: "Usefulness of Prenyltransgerase for Organic Synthesis: Carbon-Carbon Bond Forming Reactions by Prenyltransferases and their Mutated Enzymes"J.Synthetic Organic Chemistry,Japan. 60(8). 783-793 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] A.Takaya,Y.-W.Zhang, K.Asawatreratanakul, D.Wititsuwannakul, R.Wititsuwannakul, S.Takahashi, and T.Koyama: "Cloning, Expression and Characterization of a Functional cDNA Clone Encoding Geranylgeranyl Diphosphate Synthase of Hevea brasiliensis"Biochim.Biophys.Acta.. 1625(2). 214-220 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] S.Endo, Y.-W.Zhang, S.Takahashi, and T.Koyama: "Identification of Human Dehydrodolichyl Diphosphate Synthase Gene"Biochim.Biophys.Acta.. 1625(3). 291-295 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.Kharel and T.Koyama: "Molecular Analysis of cis-Prenyl Chain Elongating Enzymes"Natural Product Reports. 20(1). 111-118 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] S.Takahashi, T.Nishino, and T.Koyama: "Isolation and Expression of Pcracoccus denitrificans Decaprenyl Diphosphate Synthase Gene for Production of Ubiquinone-10 in E. coli"Biochem.EngineeringJ.. 3733(1). 1-8 (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] M.Nagaki, K.Kuwahara, K.Kimura, J.Kawakami, Y.Miki, S.Ito, N.Morita, T.Nishino, and T.Koyama: "Substrate Specificities of Medium-Prenylchain Elongating Enzymes, Hexaprenyl-and Heptaprenyl Diphosphate Synthases"J.Mol.Catal.,B:Enzymatic. in press. (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] K.Fujikura, Y.-W.Zhang, M.Fujihashi, K.Miki, and T.Koyama: "Mutational Analysis of Allylic Substrate Binding Site of Micrococuus luteus B-P 26 Undecaprenyl Diphosphate Synthase"Biochemistry. in press. (2003)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Norimasa OHYA, Tanetoshi KOYAMA: "Chapter 4. Biosynthesis of Natural Rubber and Other Natural Polyisoprenoids"Biopolymers,Polyisoprenoids,Wiley-VCH Verlag GmbH, Weinheim,T.Koyama and S.Steinbuchel eds.. Volume 2. 73-109 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Yuan-Wei ZHANG, Tanetoshi KOYAMA: "Chapter 5. Biosynthesis Routes Diverting from Intermediates of Polyisoprenoid Biosynthesis to Related Products of the Metabolism"Biopolymers, Polyisoprenoids, Wiley-VCH Verlag GmbH, Weinheim, T.Koyama and S.Steinbunchel eds.. Volume 2. 111-150 (2001)

    • Description
      「研究成果報告書概要(欧文)」より

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Published: 2004-04-14  

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