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X-RAY DIFFRACTION
Materials and Methods page
3VBC
  •   Crystallization Hide
    Crystallization Experiments
    pH 6
    Temperature 293.0
    Details 0.2 M NaAc, pH 5.0, 1.6 M Ammonium citrate dibasic, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 54.97 α = 90
    b = 65.8 β = 90
    c = 89.64 γ = 90
     
    Space Group
    Space Group Name:    I 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2011-07-20
     
    Diffraction Radiation
    Monochromator GRAPHITE
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 19-ID
    Wavelength 0.97918
    Site APS
    Beamline 19-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.3
    Resolution(High) 1.8
    Resolution(Low) 50
    Number Reflections(Observed) 15902
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.1
    B(Isotropic) From Wilson Plot 21.0
    Redundancy 6.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.8
    Resolution(Low) 32.9
    Cut-off Sigma(F) 1.34
    Number of Reflections(Observed) 15387
    Number of Reflections(R-Free) 771
    Percent Reflections(Observed) 99.6
    R-Factor(Observed) 0.183
    R-Work 0.181
    R-Free 0.223
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic
    Anisotropic B[1][1] -0.6921
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 2.01
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.3179
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8
    Shell Resolution(Low) 1.9128
    Number of Reflections(R-Free) 150
    Number of Reflections(R-Work) 2351
    R-Factor(R-Work) 0.3247
    R-Factor(R-Free) 0.3956
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9128
    Shell Resolution(Low) 2.0605
    Number of Reflections(R-Free) 119
    Number of Reflections(R-Work) 2416
    R-Factor(R-Work) 0.232
    R-Factor(R-Free) 0.2759
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0605
    Shell Resolution(Low) 2.2678
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2398
    R-Factor(R-Work) 0.1824
    R-Factor(R-Free) 0.2276
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2678
    Shell Resolution(Low) 2.5958
    Number of Reflections(R-Free) 113
    Number of Reflections(R-Work) 2449
    R-Factor(R-Work) 0.1668
    R-Factor(R-Free) 0.1844
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5958
    Shell Resolution(Low) 3.27
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2453
    R-Factor(R-Work) 0.16
    R-Factor(R-Free) 0.2099
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.27
    Shell Resolution(Low) 32.904
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2549
    R-Factor(R-Work) 0.1664
    R-Factor(R-Free) 0.2
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.071
    f_dihedral_angle_d 17.699
    f_angle_d 1.003
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1086
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 73
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) HKL-3000
    Structure Solution HKL3000
    Structure Refinement PHENIX (PHENIX.REFINE: 1.6_289)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.6_289)
    model building HKL3000
    data collection HKL-3000