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X-RAY DIFFRACTION
Materials and Methods page
2YN6
  •   Crystallization Hide
    Crystallization Experiments
    pH 6.5
    Details 50 MM ADA PH6.5, 50 MM BAAC2, 10% PEG4000
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 100.47 α = 90
    b = 100.47 β = 90
    c = 263.95 γ = 90
     
    Space Group
    Space Group Name:    P 43
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL (PILATUS 6M)
    Type DECTRIS
    Collection Date 2012-03-30
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06SA
    Wavelength 1.4000
    Site SLS
    Beamline X06SA
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 3.3
    Resolution(Low) 30
    Number Reflections(Observed) 38612
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.12
    B(Isotropic) From Wilson Plot 84.26
    Redundancy 6.5
     
    High Resolution Shell Details
    Resolution(High) 3.3
    Resolution(Low) 3.5
    Percent Possible(All) 96.6
    R Merge I(Observed) 0.64
    Mean I Over Sigma(Observed) 2.7
    Redundancy 6.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.31
    Resolution(Low) 19.986
    Cut-off Sigma(F) 1.35
    Number of Reflections(Observed) 38410
    Number of Reflections(R-Free) 1926
    Percent Reflections(Observed) 99.37
    R-Factor(Observed) 0.2285
    R-Work 0.227
    R-Free 0.2578
     
    Temperature Factor Modeling
    Data Not Available
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3098
    Shell Resolution(Low) 3.3922
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2378
    R-Factor(R-Work) 0.3114
    R-Factor(R-Free) 0.3339
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3922
    Shell Resolution(Low) 3.4834
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2625
    R-Factor(R-Work) 0.2905
    R-Factor(R-Free) 0.3526
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4834
    Shell Resolution(Low) 3.5854
    Number of Reflections(R-Free) 129
    Number of Reflections(R-Work) 2634
    R-Factor(R-Work) 0.2809
    R-Factor(R-Free) 0.3371
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5854
    Shell Resolution(Low) 3.7004
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2579
    R-Factor(R-Work) 0.2717
    R-Factor(R-Free) 0.2853
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7004
    Shell Resolution(Low) 3.8318
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2612
    R-Factor(R-Work) 0.2596
    R-Factor(R-Free) 0.2957
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8318
    Shell Resolution(Low) 3.984
    Number of Reflections(R-Free) 126
    Number of Reflections(R-Work) 2631
    R-Factor(R-Work) 0.2478
    R-Factor(R-Free) 0.2778
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.984
    Shell Resolution(Low) 4.1638
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 2632
    R-Factor(R-Work) 0.2452
    R-Factor(R-Free) 0.2717
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1638
    Shell Resolution(Low) 4.3811
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2596
    R-Factor(R-Work) 0.2192
    R-Factor(R-Free) 0.289
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.3811
    Shell Resolution(Low) 4.6524
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2619
    R-Factor(R-Work) 0.2008
    R-Factor(R-Free) 0.2323
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.6524
    Shell Resolution(Low) 5.0064
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2637
    R-Factor(R-Work) 0.204
    R-Factor(R-Free) 0.2637
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.0064
    Shell Resolution(Low) 5.5006
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2616
    R-Factor(R-Work) 0.2082
    R-Factor(R-Free) 0.2371
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.5006
    Shell Resolution(Low) 6.2749
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2655
    R-Factor(R-Work) 0.2198
    R-Factor(R-Free) 0.2705
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.2749
    Shell Resolution(Low) 7.826
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2617
    R-Factor(R-Work) 0.2356
    R-Factor(R-Free) 0.2393
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.826
    Shell Resolution(Low) 19.986
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2653
    R-Factor(R-Work) 0.1882
    R-Factor(R-Free) 0.1817
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.076
    f_dihedral_angle_d 15.905
    f_angle_d 1.218
    f_bond_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 12525
    Nucleic Acid Atoms 0
    Heterogen Atoms 12
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement PHENIX (PHENIX.REFINE)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE)
    model building PHASER