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X-RAY DIFFRACTION
Materials and Methods page
4KZZ
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion
    pH 8.5
    Temperature 292.0
    Details 0.1M Ammonium acetate, 0.05M Tris-HCl pH 8.5, 2.5% PEG-20K, 4-6% MPD, 5.0mM Mg acetate, 2.0mM TCEP, vapor diffusion, temperature 292K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 297.75 α = 90
    b = 297.75 β = 90
    c = 485.16 γ = 120
     
    Space Group
    Space Group Name:    P 31 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector AREA DETECTOR
    Type ADSC QUANTUM 315
    Collection Date 2011-07-09
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 24-ID-C
    Wavelength List 0.97949
    Site APS
    Beamline 24-ID-C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 7.03
    Resolution(Low) 80
    Number Reflections(All) 39353
    Number Reflections(Observed) 38696
    Percent Possible(Observed) 99.8
    B(Isotropic) From Wilson Plot 551.17
    Redundancy 9.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 7.0305
    Resolution(Low) 77.529
    Cut-off Sigma(F) 1.34
    Number of Reflections(all) 39353
    Number of Reflections(Observed) 38696
    Number of Reflections(R-Free) 1941
    Percent Reflections(Observed) 98.33
    R-Factor(Observed) 0.3454
    R-Work 0.345
    R-Free 0.3592
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 179.892
    Anisotropic B[1][1] 583.846
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 583.846
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 498.253
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.0305
    Shell Resolution(Low) 7.2062
    Number of Reflections(R-Free) 123
    Number of Reflections(R-Work) 2183
    R-Factor(R-Work) 0.4163
    R-Factor(R-Free) 0.4019
    Percent Reflections(Observed) 83.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.2062
    Shell Resolution(Low) 7.4009
    Number of Reflections(R-Free) 154
    Number of Reflections(R-Work) 2598
    R-Factor(R-Work) 0.4008
    R-Factor(R-Free) 0.3809
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.4009
    Shell Resolution(Low) 7.6185
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2642
    R-Factor(R-Work) 0.3979
    R-Factor(R-Free) 0.4365
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.6185
    Shell Resolution(Low) 7.8642
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2609
    R-Factor(R-Work) 0.3889
    R-Factor(R-Free) 0.4434
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.8642
    Shell Resolution(Low) 8.145
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2633
    R-Factor(R-Work) 0.408
    R-Factor(R-Free) 0.4118
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.145
    Shell Resolution(Low) 8.4707
    Number of Reflections(R-Free) 127
    Number of Reflections(R-Work) 2650
    R-Factor(R-Work) 0.3857
    R-Factor(R-Free) 0.4906
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.4707
    Shell Resolution(Low) 8.8557
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2655
    R-Factor(R-Work) 0.383
    R-Factor(R-Free) 0.4046
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.8557
    Shell Resolution(Low) 9.3219
    Number of Reflections(R-Free) 123
    Number of Reflections(R-Work) 2685
    R-Factor(R-Work) 0.3806
    R-Factor(R-Free) 0.4379
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 9.3219
    Shell Resolution(Low) 9.9048
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2652
    R-Factor(R-Work) 0.3829
    R-Factor(R-Free) 0.3592
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 9.9048
    Shell Resolution(Low) 10.6678
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 2676
    R-Factor(R-Work) 0.3655
    R-Factor(R-Free) 0.3128
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 10.6678
    Shell Resolution(Low) 11.738
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 2650
    R-Factor(R-Work) 0.3518
    R-Factor(R-Free) 0.3656
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 11.738
    Shell Resolution(Low) 13.4289
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2690
    R-Factor(R-Work) 0.3422
    R-Factor(R-Free) 0.3585
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 13.4289
    Shell Resolution(Low) 16.8902
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 2707
    R-Factor(R-Work) 0.3666
    R-Factor(R-Free) 0.3938
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 16.8902
    Shell Resolution(Low) 77.5335
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2725
    R-Factor(R-Work) 0.3023
    R-Factor(R-Free) 0.318
    Percent Reflections(Observed) 95.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 20.567
    f_plane_restr 0.022
    f_chiral_restr 0.238
    f_angle_d 2.743
    f_bond_d 0.026
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 39654
    Nucleic Acid Atoms 39394
    Heterogen Atoms 0
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) xds
    Data Reduction (data scaling) xds
    Structure Solution phaser
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix