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2004 Fiscal Year Final Research Report Summary

Genome wide protein structure and function prediction database using homology modelling

Research Project

Project/Area Number 15013251
Research Category

Grant-in-Aid for Scientific Research on Priority Areas

Allocation TypeSingle-year Grants
Review Section Biological Sciences
Research InstitutionKitasato University

Principal Investigator

UMEYAMA Hideaki  Kitasato University, School of Pharmaceutical Sciences, Professor, 薬学部, 教授 (20050619)

Co-Investigator(Kenkyū-buntansha) IWADATE Mitsuo  Kitasato University, School of Pharmaceutical Sciences, Assistant Professor, 薬学部, 講師 (10327447)
NISHIKAWA Kwn  National Institute of Genetics, DDBJ research centre, Professor, 生命情報・DDBJ研究センター, 教授 (10093288)
FUKAMI Kaoru  RIKEN, Bio Resource centre, head of room, バイオリソースセンター, 室長 (20225494)
Project Period (FY) 2003 – 2004
Keywordsprotein / structure / prediction / CASP / CAFASP / FAMS / GTOP / FAMSBASE
Research Abstract

Protein Structural Model database "FAMSBASE" was constructed using homology modeling program "FAMS".
And homology search results web site "GTOP" was constructed.
It is were available via
http://www.pharm.kitasato-u.ac.jp/fams/
http://spock.genes.nig.ac.jp/~genome/

  • Research Products

    (11 results)

All 2005 2004 2003

All Journal Article (11 results)

  • [Journal Article] A fully automated homology modeling system for protein-protein complex structure2005

    • Author(s)
      Mayuko Takeda-Shitaka, Genki Terashi, Chieko Chiba, Daisuke Takaya, Hideaki Umeyama
    • Journal Title

      Medicinal Chemistry (in press)

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Protein structure prediction in CASP6 using CHIMERA and FAMS2005

    • Author(s)
      Mayuko Takeda-Shitaka, Genki Terashi, Daisuke Takaya, Kazuhiko Kanou, Mitsuo Iwadate, Hideaki Umeyama
    • Journal Title

      Proteins (Published on line)

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Searching for protein-protein interaction sites and protein-protein docking by the methods of molecular dynamics, grid scoring and the pair-wise interaction potential of amino acid residues.2005

    • Author(s)
      Terashi G, Takeda-Shitaka M, Takaya D, Umeyama H
    • Journal Title

      Proteins 60

      Pages: 289-295

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Protein structure prediction in CASP6 using CHIMERA and FAMS2005

    • Author(s)
      Mayuko Takeda-Shitaka, Genki Terashi, Daisuke Takaya, Kazuhiko Kanou, Mitsuo Iwadate, Hideaki Umeyama
    • Journal Title

      Proteins Published online

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Searching for protein-protein interaction sites and protein-protein docking by the methods of molecular dynamics, grid scoring and the pair-wise interaction potential of amino acid residues.2005

    • Author(s)
      Terashi G, Takeda-Shitaka M, Takaya D, Umeyama H.
    • Journal Title

      Proteins 60

      Pages: 289-295

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Estimation of the number of authentic orphan genes in bacterial genomes.2004

    • Author(s)
      Fukukuchi, S., Nishikawa, K.
    • Journal Title

      DNA Res. 11

      Pages: 219-231

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Estimation of the number of authentic orphan genes in bacterial genomes.2004

    • Author(s)
      Fukukuchi, S., Nishikawa K.
    • Journal Title

      DNA Res. 11

      Pages: 219-231

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Compositional changes in RNA, DNA and proteins for bacterial adaptation to higher and lower temperatures.2003

    • Author(s)
      Nakashima, H., Fukuchi, S., Nishikawa, K.
    • Journal Title

      J. Biochem. 133

      Pages: 507-513

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Parallel Evolution of Ligand Specificity Between LacI/GalR Family Repressors and Periplasmic Sugar-Binding Proteins.2003

    • Author(s)
      Fukami-Kobayashi K., Tateno, Y., Nishikawa, K.
    • Journal Title

      Mol. Biol. Evol. 20

      Pages: 267-277

    • Description
      「研究成果報告書概要(和文)」より
  • [Journal Article] Compositional changes in RNA, DNA and proteins for bacterial adaptation to higher and lower temperatures.2003

    • Author(s)
      Nakashima, H., Fukuchi, S., Nishikawa K.
    • Journal Title

      J.Biochem. 133

      Pages: 207-513

    • Description
      「研究成果報告書概要(欧文)」より
  • [Journal Article] Parallel Evolution of Ligand Specificity Between LacI/GalR Family Repressors and Periplasmic Sugar-Binding Proteins.2003

    • Author(s)
      Fukami-Kobayashi K., Tateno, Y., Nishikawa K.
    • Journal Title

      Mol.Biol.Evol. 20

      Pages: 267-277

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

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Published: 2008-05-27  

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