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X-RAY DIFFRACTION
Materials and Methods page
4H8A
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 295.0
    Details 0.1 M MES, pH 6.0, 4.0 M sodium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 162.51 α = 90
    b = 162.51 β = 90
    c = 60.99 γ = 90
     
    Space Group
    Space Group Name:    P 42 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2012-04-10
     
    Diffraction Radiation
    Monochromator Kozhu DCM Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type PAL/PLS BEAMLINE 5C
    Wavelength List 0.97948
    Site PAL/PLS
    Beamline 5C
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.64
    Resolution(Low) 50
    Number Reflections(Observed) 99377
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.097
    Redundancy 12.0
     
    High Resolution Shell Details
    Resolution(High) 1.64
    Resolution(Low) 1.7
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.968
    Redundancy 12.1
    Number Unique Reflections(All) 9834
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.64
    Resolution(Low) 45.072
    Cut-off Sigma(F) 1.34
    Number of Reflections(Observed) 99311
    Number of Reflections(R-Free) 2000
    Percent Reflections(Observed) 99.36
    R-Factor(Observed) 0.2304
    R-Work 0.23
    R-Free 0.2464
     
    Temperature Factor Modeling
    Mean Isotropic B Value 34.0994
    Anisotropic B[1][1] -2.1546
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -2.1546
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 4.3091
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.64
    Shell Resolution(Low) 1.6812
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 6771
    R-Factor(R-Work) 0.3236
    R-Factor(R-Free) 0.3272
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6812
    Shell Resolution(Low) 1.7266
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 6883
    R-Factor(R-Work) 0.2875
    R-Factor(R-Free) 0.2865
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7266
    Shell Resolution(Low) 1.7774
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 6907
    R-Factor(R-Work) 0.2725
    R-Factor(R-Free) 0.2968
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7774
    Shell Resolution(Low) 1.8348
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 6926
    R-Factor(R-Work) 0.2649
    R-Factor(R-Free) 0.2867
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8348
    Shell Resolution(Low) 1.9004
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 6933
    R-Factor(R-Work) 0.2514
    R-Factor(R-Free) 0.2386
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9004
    Shell Resolution(Low) 1.9765
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 6919
    R-Factor(R-Work) 0.2397
    R-Factor(R-Free) 0.2547
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9765
    Shell Resolution(Low) 2.0664
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 6944
    R-Factor(R-Work) 0.2426
    R-Factor(R-Free) 0.2612
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0664
    Shell Resolution(Low) 2.1754
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 6974
    R-Factor(R-Work) 0.2389
    R-Factor(R-Free) 0.2575
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1754
    Shell Resolution(Low) 2.3117
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 6949
    R-Factor(R-Work) 0.2394
    R-Factor(R-Free) 0.2563
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3117
    Shell Resolution(Low) 2.4901
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 6978
    R-Factor(R-Work) 0.2354
    R-Factor(R-Free) 0.2531
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4901
    Shell Resolution(Low) 2.7407
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 7026
    R-Factor(R-Work) 0.2394
    R-Factor(R-Free) 0.2654
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7407
    Shell Resolution(Low) 3.1372
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 7041
    R-Factor(R-Work) 0.2366
    R-Factor(R-Free) 0.2258
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1372
    Shell Resolution(Low) 3.9522
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 7012
    R-Factor(R-Work) 0.2016
    R-Factor(R-Free) 0.2289
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.9522
    Shell Resolution(Low) 45.0889
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 7048
    R-Factor(R-Work) 0.2123
    R-Factor(R-Free) 0.2335
    Percent Reflections(Observed) 95.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 15.727
    f_plane_restr 0.004
    f_chiral_restr 0.075
    f_angle_d 1.139
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4950
    Nucleic Acid Atoms 0
    Heterogen Atoms 88
    Solvent Atoms 711
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.7.2_869)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    data reduction SCALEPACK