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X-ray crystallography and protein engineering of branched oligosaccharides-producing enzymes

Research Project

Project/Area Number 12460147
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Applied molecular and cellular biology
Research InstitutionTokyo University of Agriculture and Technology

Principal Investigator

SAKANO Yoshiyuki  Tokyo University, Faculty of Agriculture, Professor, 農学部, 教授 (70014959)

Co-Investigator(Kenkyū-buntansha) SAKAI Hiroshi  University of Shizuoka, Graduate School of Nutritional and Environmental Sciences, Professor, 大学院・生活健康科学研究科, 教授 (10092214)
KAMITORI Shigehiro  Tokyo University, Faculty of Technology, Associate Professor, 工学部, 助教授 (00262246)
NISHIKAWA Atsushi  Tokyo University, Faculty of Agriculture, Associate Professor, 農学部, 助教授 (30218127)
TONOZUKA Takashi  Faculty of Agriculture, Assistant Professor, 農学部, 助手 (50285194)
Project Period (FY) 2000 – 2002
Project Status Completed (Fiscal Year 2002)
Budget Amount *help
¥14,400,000 (Direct Cost: ¥14,400,000)
Fiscal Year 2002: ¥3,200,000 (Direct Cost: ¥3,200,000)
Fiscal Year 2001: ¥3,200,000 (Direct Cost: ¥3,200,000)
Fiscal Year 2000: ¥8,000,000 (Direct Cost: ¥8,000,000)
KeywordsPullulan / Cyclodextrin / α-amylase / TVA / Isopullulanase / Protein crystallography / パノシルパノース / 結構構造解析
Research Abstract

In this study, highly specific enzymes which produce branched oligosaccharides, TVA I and TVA II from Thermoactinomyces vulgaris and isopullulanase from Aspergillus niger, have been studied, and the following results were obtained.
1. Crystal structures of TVA I and TVA II
Both TVA I and TVA II hydrolyze pullulan to produce panose. However, TVA I prefers polysaccharides, namely, starch and pullulan, while TVA II hydrolyzes oligosaccharides more strongly. The crystal structures of TVA I and also TVA II-substrate complex were determined and compared in this study.The results showed that : (1) the orientation of domain N of TVA I and TVA II are quite different, (2)TVA I is observed as a monomer in the crystal, while TVA II functions as a dimer, and these points appear to give the difference of substrate specificities between TVA I and TVA II.
2. Novel glucoamylase and cyclodextrin-binding protein from T. vulgaris
To obtain enzymes related to oligosaccharide metabolysis, the flanking region of TVA II was sequenced, and genes of glucoamylase and cyclodextrin-binding protein were found. Numerous glucoamylases from fungi have been studied, and they prefer starch to maltooligosaccharides. In contrast, the glucoamylase from T. vulgaris efficiently hydrolyzes maltooligosaccharides.
3. Construction of expression system and properties of isopullulanase
An expression system using a yeast, Pichia pastoris, has been established, and the enzyme was purified. The properties of the recombinant isopullulanase was also assessed, and the finding suggests that glycochains plays the essential role for the activity of isopullulanase.

Report

(4 results)
  • 2002 Annual Research Report   Final Research Report Summary
  • 2001 Annual Research Report
  • 2000 Annual Research Report
  • Research Products

    (43 results)

All Other

All Publications (43 results)

  • [Publications] K.Ichikawa, T.Tonozuka, T.Yokota, Y.Shimura, Y.Sakano: "Analysis of Catalytic Residues of Thermoactinomyces vulgaris R-47 α-Amylase II(TVA II) by site-directed mutagenesis"Biosci.Biotechnol.Biochem.. 64. 2692-2695 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 殿塚隆史, 坂野好幸, 神鳥成弘: "プルランとサイクロデキストリンを分解するα-アミラーゼの機能と立体構造"バイオサイエンスとインダストリー. 58. 560-563 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] A.Padmajanti, T.Tonozuka, Y.Sakano: "Deglycosyl Isopullulanase Retains Enzymatic Activity"J.Appl.Glycosci.. 47. 287-292 (2000)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] A.Ohtaki, S.Kondo, Y.Shimura, T.Tonozuka, Y.Sakano, S.Kamitori: "Role of Phe286 in the recognition mechanism of cyclomaltooligosaccharides (cyclodextrins) by Thermoactinomyces vulgaris R-47 α-amylase II (TVA II). X-ray structures of the mutant TVA IIs, F286A and F286Y, and kinetic analyses of the Phe286-replaced mutant TVA IIs"Carbohydr.Res.. 334. 309-313 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] R.Uotsu-Tomita, T.Tonozuka, H.Sakai, Y.Sakano: "Novel glucoamylase-type enzymes from Thermoactinomyces vulgaris and Methanococcus jannaschii whose genes are found in the flanking region of the α-amylase genes"Appl.Microbiol.Biotechnol.. 56. 465-473 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 殿塚隆史, 神鳥成弘, 坂野好幸: "好熱性放線菌Thermoactinomyces vulgarisの2種類のプルラン分解α-アミラーゼの立体構造と機能"応用糖質科学. 48. 163-169 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T.Yokota, T.Tonozuka, Y.Shimura, K.Ichikawa, S.Kamitori, Y.Sakano: "Structures of Thermoactinomyces vulgaris R-47 α-Amylase II complexed with substrate analogues"Biosci.Biotechnol.Biochem.. 65. 619-626 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] S.Kondo, A.Ohtaki, T.Tonozuka, Y.Sakano, S.Kamitori: "Studies on the hydrolyzing mechanism for cyclodextrins of Thermoactinomyces vulgaris R-47 α-Amylase II (TVA II)"J.Biochem.. 129. 423-428 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T.Yokota, T.Tonozuka, S.Kamitori, Y.Sakano: "The Deletion of Amino-Terminal Domain in Thermoactinomyces vulgaris R-47 α-Amylases"Biosci.Biotechnol.Biochem.. 65. 401-408 (2001)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] Yopi, T.Tonozuka, H.Sakai, Y.Sakano: "Cloning of a gene cluster for dextrin utilization from Thermoactinomyces vulgaris R-47 and characterizarion of the cyclodextrin-inding protein"J.Appl.Glycosci.. 49. 107-114 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] S.Kamitori, A.Abe, A.Ohtaki, A.Kaji, T.Tonozuka, Y.Sakano: "Crystal Structures and Structural Comparison of Thermoactinomyces vulgaris R-47 α-Amylase I(TVAI) at 1.6Å Resolution and α-Amylase II (TVAII) at 2.3Å Resolution"J.Mol.Biol.. 318. 443-453 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] 殿塚隆史, 坂野好幸: "多糖プルランを分解するα-アミラーゼの立体構造とダイマー形成"生化学. 74. 1162-1166 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T.Tonozuka, T.Yokota, K.Ichikawa, M.Mizuno, S.Kondo, A.Nishikawa, S.Kamitori, Y.Sakano: "Crystal structures and substrate specificities of two α-amylase hydrolyzing cyclodextrins and pullulan from Thermoactinomyces vulgaris R-47"Biologia, Bratislava. 57,Suppl.11. 71-76 (2002)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] H.Akeboshi, Y.Kashiwagi, H.Aoki, T.Tonozuka, A.Nishikawa, Y.Sakano: "Construction of an Efficient Expression System for Aspergillus Isopullulanase in Pichia pastoris and a Simple Purification Method"Biosci.Biotechnol.Biochem.. (in press). (2003)

    • Description
      「研究成果報告書概要(和文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] K. ichikawa, T. Tonozuka, T. Yokota, Y. Shimura and Y. Sakano: "Analysis of Catalytic Residues of Thermoactinomyces vulgaris R-47 α -Amylase II (TVA II) by site-directed mutagenesis"Biosci. Biotechnol. Biochem.. 64. 2692-2695 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Tonozuka, Y. Sakano and S. Kamitori: "The function and three dimensional structure of α-amylase hydrolyzing pullulan and cyclodextrins"Bioscience and Industry.. 58. 560-563 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] A. Padmajanti, T. Tonozuka and Y. Sakano: "Deglycosyl Isopullulanase Retains Enzymatic Activity"J. Appl. Glycosci.. 47. 287-292 (2000)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] A. Ohtaki, S. Kondo, Y. Shimura, T. Tonozuka, Y. Sakano and S. Kamitori: "Role of Phe286 in the recognition mechanism of cyclomaltooligosaccharides (cyclodextrins) by Thermoactinomyces vulgaris R-47 α-amylase II (TVA II). X-ray structures of the mutant TVA IIs, F286A and F286Y, and kinetic analyzes of the Phe286-replaced mutant TVA IIs"Carbohydr. Res.. 334. 309-313 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] R. Uotsu-Tomita, T. Tonozuka, H. Sakai and Y. Sakano: "Novel glucoamylase-type enzymes from Thermoactinomyces vulgaris and Methanococcus jannaschii whose genes are found in the flanking region of the α -amylase genes"Appl. Microbiol. Biotechnol. 56. 465-473 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Tonozuka, S. Kamitori and Y. Sakano: "Crystal structures and functions of two pullulan-hydrolyzing α-amylases from thermophilic actinomycete, Thermoactinomyces vulgaris"J. Appl. Glycosci.. 48. 163-169 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Yokota, T. Tonozuka, Y. Shimura, K. Ichikawa, S. Kamitori and Y. Sakano: "Structures of Thermoactinomyces vulgaris R-47 α-Amylase II complexed with substrate analogues"Biosci. Biotechnol. Biochem.. 65. 619-626 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] S. Kondo, A. Ohtaki, T. Tonozuka, Y. Sakano and S. Kamitori: "Studies on the hydrolyzing mechanism for cyclodextrins of Thermoactinomyces vulgaris R-47 α-Amylase II (TVA II)"J. Biochem.. 129. 423-428 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Yokota, T. Tonozuka, S. Kamitori and Y. Sakano: "The Deletion of Amino-Terminal Domain in Thermoactinomyces vulgaris R-47 α-Amylases"Biosci. Biotechnol. Biochem.. 65. 401-408 (2001)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] Yopi, T. Tonozuka, H. Sakai and Y. Sakano: "Cloning of a gene cluster for dextrin utilization from Thermoactinomyces vulgaris R-47 and characterizarion of the cyclodextrin-binding protein"J. Appl. Glycosci.. 49. 107-114 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] S. Kamitori, A. Abe, A. Ohtaki, A. Kaji, T. Tonozuka and Y. Sakano: "Crystal Structures and Structural Comparison of Thermoactinomyces vulgaris R-47 α-Amylase I (TVA II) at 1.6 Å Resolution and α-Amylase II (TVA II) at 2.3 ÅResolution"J. Mol. Biol.. 318. 443-453 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Tonozuka and Y. Sakano: "Three-dimensional structures and dimerization of α-amylases hydrolyzing a polysaccharide, pullulan"Seikagaku. 74. 1162-1166 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] T. Tonozuka, T. Yokota, K. Ichikawa, M. Mizuno, S. Kondo, A. Nishikawa, S. Kamitori and Y. Sakano: "Crystal structures and substrate specificities of two α-amylase hydrolyzing cyclodextrins and pullulan from Thermoactinomyces vulgaris R-47"Biologia. Bratislava.. 57-suppl II. 71-76 (2002)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] H. Akeboshi, Y. Kashiwagi, H. Aoki, T. Tonozuka, A. Nishikawa and Y. Sakano: "Construction of an Efficient Expression System for Aspergillus Isopullulanase in Pichia pastoris and a Simple Purification Method"Biosci. Biotechnol. Biochem.. in press. (2003)

    • Description
      「研究成果報告書概要(欧文)」より
    • Related Report
      2002 Final Research Report Summary
  • [Publications] Yopi, T.Tonozuka, H.Sakai, Y.Sakano: "Cloning of a gene cluster for dextrin utilization from Thermoactinomyces vulgaris R-47 and characterizarion of the cyclodextrin-binding protein"J Appl.Glycosci.. 49. 107-114 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] S.Kamitori, A.Abe, A.Ohtaki, A.Kaji, T.Tonozuka, Y.Sakano: "Crystal Structures and Structural Comparison of Thermoactinomyces vulgaris R-47 α-Amylase I (TVAI) at 1.6Å Resolution and α -Amylase II (TVAII) at 2.3Å Resolution"J.Mol.Biol.. 318. 443-453 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] 殿塚隆史, 坂野好幸: "多糖プルランを分解するα-アミラーゼの立体構造とダイマー形成"生化学. 74. 1162-1166 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] T.Tonozuka, T.Yokota, K.Ichikawa, M.Mizuno, S.Kondo, A.Nishikawa, S.Kamitori, Y.Sakano: "Crystal structures and substrate specificities of two α-amylase hydrolyzing cyclodextrins and pullulan from Thermoactinomyces vulgaris R-47"Biologia, Bratislava. 57,Suppl.11. 71-76 (2002)

    • Related Report
      2002 Annual Research Report
  • [Publications] H.Akeboshi, Y.Kashiwagi, H.Aoki, T.Tonozuka, A.Nishikawa, Y.Sakano: "Construction of an Efficient Expression System for Aspergillus Isopullulanase in Pichia pastoris and a Simple Purification Method"Biosci.Biotechnol.Biochem.. (in press). (2003)

    • Related Report
      2002 Annual Research Report
  • [Publications] Rie Uotsu-Tomita, Takashi Tonozuka, Yoshiyuki Sakano: "Novel glucoamylase-type enzymes from Thermoactinomyces vulgaris and Methanococcus annaschii whose genes are found in the flaking region of α-amylase genes"Applied Microbiology Biotechnology. 56. 465-473 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] A.Ohtaki, S.Kondo, Y.Shimura, T.Tonozuka, Y.Sakano, S.Kamitori: "Role of Phe286 in the recognition mechanism of cylomaltcoligosaccharides (cylodexiring) by Themoactinomycesvtdgaris R-47 a-amylase2 (TVAII). X-raystructures of the mutant TVAIIsF286A and F286Y, and kinetic analyscs of Phe286-replacedmutant TVAIIs"Carbohydrate Research. 334. 309-313 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] Takashi Tonozuka, Shigehiro Kamitori, Yoshiyuki Sakano: "Crystal Structure and Functions of Two Pullulan-hydrolyzing α-Amylases from a Thermophilic Actinomycete, Thermoactiomyces vulgaris"Journal Applied Glycoscience. 48(2). 163-169 (2001)

    • Related Report
      2001 Annual Research Report
  • [Publications] T.Yokota,T.Tonozuka,Y.Shimura,K.Ichikawa,S.Kamitori and Y.Sakano: "Structures of Thermoactinomyces vulgaris R-47 α-Amylase II complexed with substrate analogues"Bioscience,Biotechnology,and Biochemistry. 65(3). 619-626 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] S.Kondo,A.Ohtaki,T.Tonozuka,Y.Sakano and S.Kamitori: "Studies on the hydrolyzing mechanism for cyclodextrins of Thermoactinomyces vulgaris R-47 α-Amylase II (TVA II)."Journal of Biochemistry. 129(3). 423-428 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] T.Yokota,T.Tonozuka,S.Kamitori and Y.Sakano: "The Deletion of Amino-Terminal Domain in Thermoactinomyces vulgaris R-47 α-Amylases"Bioscience,Biotechnology,and Biochemistry. 65(2). 401-408 (2001)

    • Related Report
      2000 Annual Research Report
  • [Publications] K.Ichikawa,T.Tonozuka,T.Yokota,Y.Shimura and Y.Sakano: "Analysis of Catalytic Residues of Thermoactinomyces vulgaris R-47 α-Amylase II (TVA II) by site-directed mutagenesis "Bioscience,Biotechnology,and Biochemistry. 64(12). 2692-2695 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] A.Padmajanti,T.Tonozuka and Y.Sakano: "Deglycosyl Isopullulanase Retains Enzymatic Activity"Journal of Applied Glycoscience. 47(3&4). 287-292 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] 殿塚隆史,坂野好幸,神鳥成弘: "プルランとサイクロデキストリンを分解するα-アミラーゼの機能と立体構造"バイオサイエンスとインダストリー. 58(8). 560-563 (2000)

    • Related Report
      2000 Annual Research Report
  • [Publications] R.Uotsu-Tomita,T.Tonozuka,H.Sakai and Y.Sakano: "Novel glucoamylase-type enzymes from Thermoactinomyces vulgaris and Methanococcus jannaschii whose genes are found in the flanking region of α-amylase genes"Applied Microbiology and Biotechnology. (in press). (2001)

    • Related Report
      2000 Annual Research Report

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Published: 2000-04-01   Modified: 2016-04-21  

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