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X-RAY DIFFRACTION
Materials and Methods page
4IZZ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8
    Temperature 289.0
    Details 24 % Polyvinylpyrrolidone, 50 mM Hepes pH 8.0, 100 mM sodium chloride, 10 mM magnesium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 92.43 α = 90
    b = 92.43 β = 90
    c = 96.37 γ = 120
     
    Space Group
    Space Group Name:    P 31
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Details mirrors
    Collection Date 2012-11-02
     
    Diffraction Radiation
    Monochromator double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 19-ID
    Wavelength List 0.97910
    Site APS
    Beamline 19-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.5
    Resolution(Low) 50
    Number Reflections(All) 31681
    Number Reflections(Observed) 31681
    Percent Possible(Observed) 99.7
    B(Isotropic) From Wilson Plot 58.8
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.54
    Percent Possible(All) 99.4
    Mean I Over Sigma(Observed) 1.9
    R-Sym I(Observed) 0.744
    Redundancy 3.6
    Number Unique Reflections(All) 1563
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.502
    Resolution(Low) 30.786
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 31655
    Number of Reflections(Observed) 31655
    Number of Reflections(R-Free) 1595
    Percent Reflections(Observed) 99.69
    R-Factor(All) 0.185
    R-Factor(Observed) 0.185
    R-Work 0.182
    R-Free 0.224
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Isotropic Thermal Model mixed
    Mean Isotropic B Value 64.5
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.502
    Shell Resolution(Low) 2.5827
    Number of Reflections(Observed) 2859
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2707
    R-Factor(R-Work) 0.2668
    R-Factor(R-Free) 0.3271
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5827
    Shell Resolution(Low) 2.6749
    Number of Reflections(Observed) 2872
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2738
    R-Factor(R-Work) 0.2457
    R-Factor(R-Free) 0.2651
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6749
    Shell Resolution(Low) 2.782
    Number of Reflections(Observed) 2910
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2769
    R-Factor(R-Work) 0.2337
    R-Factor(R-Free) 0.258
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.782
    Shell Resolution(Low) 2.9085
    Number of Reflections(Observed) 2868
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2736
    R-Factor(R-Work) 0.2382
    R-Factor(R-Free) 0.3325
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9085
    Shell Resolution(Low) 3.0617
    Number of Reflections(Observed) 2891
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2750
    R-Factor(R-Work) 0.2284
    R-Factor(R-Free) 0.3097
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0617
    Shell Resolution(Low) 3.2533
    Number of Reflections(Observed) 2853
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2720
    R-Factor(R-Work) 0.2305
    R-Factor(R-Free) 0.278
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2533
    Shell Resolution(Low) 3.5042
    Number of Reflections(Observed) 2915
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2773
    R-Factor(R-Work) 0.2003
    R-Factor(R-Free) 0.2454
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5042
    Shell Resolution(Low) 3.8562
    Number of Reflections(Observed) 2875
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2732
    R-Factor(R-Work) 0.1752
    R-Factor(R-Free) 0.2027
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8562
    Shell Resolution(Low) 4.4128
    Number of Reflections(Observed) 2857
    Number of Reflections(R-Free) 158
    Number of Reflections(R-Work) 2699
    R-Factor(R-Work) 0.1533
    R-Factor(R-Free) 0.1888
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.4128
    Shell Resolution(Low) 5.5544
    Number of Reflections(Observed) 2894
    Number of Reflections(R-Free) 170
    Number of Reflections(R-Work) 2724
    R-Factor(R-Work) 0.1484
    R-Factor(R-Free) 0.1948
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.5544
    Shell Resolution(Low) 30.7887
    Number of Reflections(Observed) 2850
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2712
    R-Factor(R-Work) 0.1629
    R-Factor(R-Free) 0.2033
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.003
    f_chiral_restr 0.046
    f_dihedral_angle_d 17.198
    f_angle_d 0.686
    f_bond_d 0.003
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4828
    Nucleic Acid Atoms 856
    Heterogen Atoms 23
    Solvent Atoms 159
     
     
  •   Software and Computing Hide
    Computing
    Data Collection SBCCOLLECT, HKL3000
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) HKL-3000
    Structure Solution HKL3000, Molrep
    Structure Refinement PHENIX (phenix.refine: 1.8.1_1161)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8.1_1161)
    model building Molrep
    model building HKL3000
    data collection HKL3000
    data collection SBCCOLLECT