Yasushi Nitanai

Summary

Affiliation: Japan Synchrotron Radiation Research Institute
Country: Japan

Publications

  1. ncbi Crystal structure of human renal dipeptidase involved in beta-lactam hydrolysis
    Yasushi Nitanai
    Faculty of Pharmaceutical Sciences, University of Tokyo, Hongo, Bunkyo ku, Tokyo, Japan
    J Mol Biol 321:177-84. 2002
  2. doi Crystal structures of the complexes between vancomycin and cell-wall precursor analogs
    Yasushi Nitanai
    Structural Biophysics Laboratory, RIKEN SPring 8 Center, Harima Institute, Sayo, Hyogo, Japan
    J Mol Biol 385:1422-32. 2009
  3. pmc Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability
    David Popp
    ERATO Actin Filament Dynamics Project, RIKEN Harima Institute, Japan Science and Technology Corporation, Sayo, Hyogo, Japan
    EMBO J 27:570-9. 2008
  4. pmc Two-crystal structures of tropomyosin C-terminal fragment 176-273: exposure of the hydrophobic core to the solvent destabilizes the tropomyosin molecule
    Shiho Minakata
    ERATO Actin Filament Dynamics Project, JST, Sayo, Hyogo 679 5148, Japan
    Biophys J 95:710-9. 2008
  5. doi The catalytic efficiency (kcat/Km) of the class A beta-lactamase Toho-1 correlates with the thermal stability of its catalytic intermediate analog
    Yasushi Nitanai
    Structural Biophysics Laboratory, RIKEN SPring 8 Center, Harima Institute, Sayo, Hyogo 679 5148, Japan
    Biochim Biophys Acta 1804:684-91. 2010
  6. pmc Crystallization and preliminary X-ray crystallographic analysis of full-length yeast tropomyosin 2 from Saccharomyces cerevisiae
    Vladimir Meshcheryakov
    ERATO Actin Filament Dynamics Project, Japan Science and Technology Agency, c o RIKEN Harima Institute SPring 8 Center, Sayo, Hyogo 679 5148, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 64:528-30. 2008
  7. ncbi Single molecule polymerization, annealing and bundling dynamics of SipA induced actin filaments
    David Popp
    ERATO Actin Filament Dynamics Project, Japan Science and Technology Corporation, c o RIKEN Harima Institute at Spring 8, Kouto, Sayo, Hyogo 679 5148, Japan
    Cell Motil Cytoskeleton 65:165-77. 2008
  8. ncbi Thiol reactivity as a sensor of rotation of the converter in myosin
    Hirofumi Onishi
    Exploratory Research for Advanced Technology Actin Filament Dynamics Project, Japan Science and Technology Agency, c o RIKEN Harima Institute at Spring 8, 1 1 1 Kouto, Sayo, Hyogo 679 5148, Japan
    Biochem Biophys Res Commun 369:115-23. 2008
  9. ncbi Crystal structures of tropomyosin: flexible coiled-coil
    Yasushi Nitanai
    ERATO Actin Filament Dynamics Project, JST, Sayo, Hyogo 679 5148, Japan
    Adv Exp Med Biol 592:137-51. 2007
  10. pmc Improvement of crystal quality by surface mutations of beta-lactamase Toho-1
    Tatsuro Shimamura
    RIKEN SPring 8 Center, Harima Institute, Kouto, Sayo, Hyogo 679 5148, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 65:379-82. 2009

Detail Information

Publications13

  1. ncbi Crystal structure of human renal dipeptidase involved in beta-lactam hydrolysis
    Yasushi Nitanai
    Faculty of Pharmaceutical Sciences, University of Tokyo, Hongo, Bunkyo ku, Tokyo, Japan
    J Mol Biol 321:177-84. 2002
    ..The barrel and active-site architectures utilizing catalytic metal ions exhibit unexpected similarities to those of the murine adenosine deaminase and the catalytic domain of the bacterial urease...
  2. doi Crystal structures of the complexes between vancomycin and cell-wall precursor analogs
    Yasushi Nitanai
    Structural Biophysics Laboratory, RIKEN SPring 8 Center, Harima Institute, Sayo, Hyogo, Japan
    J Mol Biol 385:1422-32. 2009
    ..These observations provide, at least in part, a molecular basis for the reduced antibacterial activity of vancomycin toward vancomycin-resistant bacteria with cell-wall precursors terminating in -D-Ala-D-lactate...
  3. pmc Molecular structure of the ParM polymer and the mechanism leading to its nucleotide-driven dynamic instability
    David Popp
    ERATO Actin Filament Dynamics Project, RIKEN Harima Institute, Japan Science and Technology Corporation, Sayo, Hyogo, Japan
    EMBO J 27:570-9. 2008
    ....
  4. pmc Two-crystal structures of tropomyosin C-terminal fragment 176-273: exposure of the hydrophobic core to the solvent destabilizes the tropomyosin molecule
    Shiho Minakata
    ERATO Actin Filament Dynamics Project, JST, Sayo, Hyogo 679 5148, Japan
    Biophys J 95:710-9. 2008
    ..Thus, Tm should not be regarded as a train of short rigid rods connected by flexible linkers, but rather as a seamless rubber rod patched with relatively more flexible regions...
  5. doi The catalytic efficiency (kcat/Km) of the class A beta-lactamase Toho-1 correlates with the thermal stability of its catalytic intermediate analog
    Yasushi Nitanai
    Structural Biophysics Laboratory, RIKEN SPring 8 Center, Harima Institute, Sayo, Hyogo 679 5148, Japan
    Biochim Biophys Acta 1804:684-91. 2010
    ..The results demonstrate a new method for investigating the catalytic properties of enzymes against any substrates, and a new approach to designing enzymes...
  6. pmc Crystallization and preliminary X-ray crystallographic analysis of full-length yeast tropomyosin 2 from Saccharomyces cerevisiae
    Vladimir Meshcheryakov
    ERATO Actin Filament Dynamics Project, Japan Science and Technology Agency, c o RIKEN Harima Institute SPring 8 Center, Sayo, Hyogo 679 5148, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 64:528-30. 2008
    ..8, b = 49.9, c = 104.0 A, alpha = gamma = 90.0, beta = 124.0 degrees and two molecules in the asymmetric unit. A complete native X-ray diffraction data set was collected to 3.5 A resolution using synchrotron radiation...
  7. ncbi Single molecule polymerization, annealing and bundling dynamics of SipA induced actin filaments
    David Popp
    ERATO Actin Filament Dynamics Project, Japan Science and Technology Corporation, c o RIKEN Harima Institute at Spring 8, Kouto, Sayo, Hyogo 679 5148, Japan
    Cell Motil Cytoskeleton 65:165-77. 2008
    ..Taken together these three effects, rapid SipA induced actin polymerization, filament annealing and bundle formation due to molecular crowding can explain how Salmonella invades cells at molecular level...
  8. ncbi Thiol reactivity as a sensor of rotation of the converter in myosin
    Hirofumi Onishi
    Exploratory Research for Advanced Technology Actin Filament Dynamics Project, Japan Science and Technology Agency, c o RIKEN Harima Institute at Spring 8, 1 1 1 Kouto, Sayo, Hyogo 679 5148, Japan
    Biochem Biophys Res Commun 369:115-23. 2008
    ....
  9. ncbi Crystal structures of tropomyosin: flexible coiled-coil
    Yasushi Nitanai
    ERATO Actin Filament Dynamics Project, JST, Sayo, Hyogo 679 5148, Japan
    Adv Exp Med Biol 592:137-51. 2007
    ..E218, an unusual negatively charged residue at the a position in the heptad repeat, seems to play the key role in destabilizing the coiled coil with alanine destabilizing clusters...
  10. pmc Improvement of crystal quality by surface mutations of beta-lactamase Toho-1
    Tatsuro Shimamura
    RIKEN SPring 8 Center, Harima Institute, Kouto, Sayo, Hyogo 679 5148, Japan
    Acta Crystallogr Sect F Struct Biol Cryst Commun 65:379-82. 2009
    ..The crystals diffracted to a significantly higher resolution (approximately 0.97 A) than the wild-type crystals (1.65 A); they belonged to the same space group and had almost identical unit-cell parameters to those of wild-type Toho-1...
  11. pmc Crystal structure of the C-terminal half of tropomodulin and structural basis of actin filament pointed-end capping
    Inna Krieger
    Laboratory for Structural Biochemistry, RIKEN Harima Institute at SPring 8, Mikazuki, Sayo, Hyogo, Japan 679 5148
    Biophys J 83:2716-25. 2002
    ..The model also suggests that interactions with tropomyosin, actin, and nebulin are all possible sources of influences on the dynamic properties of pointed-end capping by tropomodulin...
  12. ncbi From the crystal structure of troponin to the mechanism of calcium regulation of muscle contraction
    Yuichiro Maeda
    ERATO Actin Filament Dynamics Project, c o RIKEN Harima Institute SPring 8 Center, Sayo, Hyogo, Japan
    Adv Exp Med Biol 592:37-46. 2007
  13. ncbi A substrate variant as a high-affinity, reversible inhibitor: insight from the X-ray structure of cilastatin bound to membrane dipeptidase
    Timothy P Smyth
    Department of Chemical and Environmental Sciences, Univeristy of Limerick, National Technological Park, County Limerick, Ireland
    Bioorg Med Chem 11:991-8. 2003
    ..Such a feature could have more general applicability in the explicit design of substrate variants as selective, tight-binding, and reversible inhibitors...