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X-RAY DIFFRACTION
Materials and Methods page
3VD2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details 0.1M Bis-tris, 0.1M Ammonium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K, pH 6.5
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 158.4 α = 90
    b = 91.13 β = 90.2
    c = 137.48 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 200
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Details mirror
    Collection Date 2010-06-30
     
    Diffraction Radiation
    Monochromator Rh coated flat mirror
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL7-1
    Wavelength List 0.98
    Site SSRL
    Beamline BL7-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 4
    Resolution(Low) 50
    Number Reflections(All) 97649
    Number Reflections(Observed) 16649
    Percent Possible(Observed) 99.2
    Redundancy 5.9
     
    High Resolution Shell Details
    Resolution(High) 4.0
    Resolution(Low) 4.14
    Percent Possible(All) 99.6
    Mean I Over Sigma(Observed) 3.8
    R-Sym I(Observed) 0.4
    Redundancy 5.6
    Number Unique Reflections(All) 1695
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 4.0
    Resolution(Low) 45.69
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 16649
    Number of Reflections(Observed) 16648
    Number of Reflections(R-Free) 350
    Percent Reflections(Observed) 99.1
    R-Factor(All) 0.258
    R-Factor(Observed) 0.248
    R-Work 0.248
    R-Free 0.284
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 87.9
    Anisotropic B[1][1] -3.83
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.75
    Anisotropic B[2][2] 6.33
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.5
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0
    Shell Resolution(Low) 4.25
    Number of Reflections(Observed) 2691
    Number of Reflections(R-Free) 69
    Number of Reflections(R-Work) 2691
    R-Factor(R-Work) 0.278
    R-Factor(R-Free) 0.308
    R-Free Error 0.037
    Percent Reflections(Observed) 99.5
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 1.42
    c_dihedral_angle_d 26.2
    c_angle_deg 1.9
    c_bond_d 0.01
     
    Coordinate Error
    Luzzati ESD(Observed) 0.45
    Luzzati Sigma A(Observed) 0.6
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.51
    Luzzati Sigma A(R-Free Set) 0.57
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 9480
    Nucleic Acid Atoms 1666
    Heterogen Atoms 6
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution phaser
    Structure Refinement CNS 1.3
     
    Software
    refinement CNS version: 1.3
    model building phaser
    data collection HKL-2000