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1994 Fiscal Year Final Research Report Summary

A Crystallographic Workbench and Its Use in Structure Analysis of Hydrogenase

Research Project

Project/Area Number 04403026
Research Category

Grant-in-Aid for General Scientific Research (A)

Allocation TypeSingle-year Grants
Research Field 結晶学
Research InstitutionHimeji Institute of Thchnology

Principal Investigator

YASUOKA Noritake  Faculty of Science, Himeji Institute of Thchnology, Professor10, 理学部, 教授 (40029054)

Co-Investigator(Kenkyū-buntansha) MISAKI Shintaro  Faculty of Science, Himeji Institute of Thchnology, Assistant, 理学部, 助手 (30244685)
HIGUCHI Yoshiki  Faculty of Science, Himeji Institute of Thchnology, Associate Professor, 理学部, 助教授 (90183574)
Project Period (FY) 1992 – 1994
Keywordscrystallographic workbench / hydrogenase / X-ray analysis / anomalous scattering / isomorphous relacement / electron density / iron sulfur cluster / network
Research Abstract

A crystallographic workbench or a crystallographic workstation installed with software packages and database systems is developed, which enables a through processing from X-ray measurement to protein structure analysis. As workstations have become more popular in many crystallography laboratories, a through X-ray analysis system is now able to be constructed via local area network. X-ray diffraction measurement apparatuses, Rigaku fourcircle single crystal diffractometer and MAC Science Image The construction of an integrated system of measuring the X-ray intensities from any crystal specimen, transferring structure factor data via network, carrying out the structure analysis and displaying the molecular structure.
The active centers of NiFe hydrogenase from Desulfovibrio vulgaris Miyazaki F has been located in the electron density map calculated at 4 * resolution. The electron density map based on five heavy atom derivatives showed four strong peaks which were clearly distinguished from the protein region. These strong densities have been successfully assigned to three iron-sulfur clusters and one nickel atom by difference Fourier technique with coefficients of the best phases from multiple isomorphous replacement (MIR) method and structure factors obtained at five wavelengths (1.040,1.487,1.730,1.743, and 1.750* with use of the synchrotron radiation source. Four active centers are approximately lined up with a distance of ca. 13* which seems to be reasonable for them to be connected with electron transfer chain.

  • Research Products

    (12 results)

All Other

All Publications (12 results)

  • [Publications] Y.Higuchi,H.Akutsu and N.Yasuoka: "A detailed comparison of the refined structures of cytochrome c3 molecules from two strains in Desulfovibrio vulgaris:The relationship between the heme structures and redox properties" Biochimie. 76. 537-545 (1994)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Higuchi,S.Misaki,Y.Morimoto and N.Yasuoka: "Location of Active Sites of NiFe Hydrogenase determined by the Combination of Multiple Isomorphous Replacement and Multiwavelength Anomalous Diffraction Methods" Acta Crystallographica. D50. 781-785 (1994)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] I.Fujii,N.Hirayama,S.Misaki,Y.Higuchi and N.Yasuoka: "An Integrated X-ray Measurement and Computation System in Protein Crystallography Y.Higuchi," Bioimages. 2. 143-148 (1994)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] I.Fujii,N.Hirayama,Y.Higuchi,and N.Yasuoka: "XVIEWER-An Interactive Image Processing Program for Diffraction Data from the Weissenberg Camera for Macromolecular Crystallography" Bioimages. 2. 47-52 (1994)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] N.Yasuoka,S.Sugiyama,Y.Morimoto,Y.Higuchi: "On the Active Sites of Hydrogenase from Desulfovibrio vulgaris Miyazaki F" Jpn.J.Appl.Phys.32. 553-555 (1993)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] A.Yoneda,T.Hakushi,Y.Morimoto and N.Yasuoka: "Intramolecular Hydrogen Bonding Within Cyclometalated Palladium(II)Complex Containing L(-)-1-Phenylethylamine Ligand" Chemistry Letters. 175-176 (1994)

    • Description
      「研究成果報告書概要(和文)」より
  • [Publications] Y.Higuchi, H.Akutsu, and N.Yasuoka: "A detailed comparison of the refined structures of cytochrome c3 molecules from two strains in Desulfovibrio vulgaris : The relationship between the heme structures and redox properties" Biochimie. 76. 537-545 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] Y.Higuchi, S.Misaki, Y.Morimoto and N.Yasuoka: "Location of Active Sites of NiFe Hydrogenase determined by the Combination of Multiple Isomorphous Replacement and Multiwavelength Anomalous Diffraction Methods" Acta Crystallographica. D50. 781-785 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] I.Fujii, N.Hirayama, S.Misaki, Y.Higuchi and N.Yasuoka: "An Integrated X-ray Measurement and Computation System in Proten Crystallography Y.Higuchi" Bioimages. 2. 143-148 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] I.Fujii, N.Hirayama, Y.Higuchi, and N.Yasuoka: "XVIEWER-An Interactive Image Processing Program for Diffraction Data from the Weissenberg Camera for Macromolecular Crystallography" Bioimages. 2. 47-52 (1994)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] N.Yasuoka, S.Sugiyama, Y.Morimoto.Y.Higuchi: "On the Active Sites of Hydrogenase from Desulfovibrio vulgaris Miyazaki F" Jpn.J.Appl.Phys.32. 553-555 (1993)

    • Description
      「研究成果報告書概要(欧文)」より
  • [Publications] A.Yoneda, To.Hakushi, Y.Morimoto and N.Yasuoka: "Intramolecular Hydrogen Bonding within Cyclometalated Palladium (II) Complex Containing L (-) -1-Phenylethylamine Ligand" Chemistry Letters. 175-176 (1994)

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

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Published: 1996-04-15  

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