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X-RAY DIFFRACTION
Materials and Methods page
3RKJ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.5
    Temperature 289.0
    Details 0.17 M Ammonium sulfate 25.5 % (w/v) PEG 4000, 15 % (v/v) Glycerol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.71 α = 90
    b = 51.11 β = 106.96
    c = 70.68 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Details mirrors
    Collection Date 2011-04-11
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 19-ID
    Wavelength List 0.97934
    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
    Resolution(Low) 50
    Number Reflections(All) 26835
    Number Reflections(Observed) 26835
    Percent Possible(Observed) 95.0
    R Merge I(Observed) 0.153
    B(Isotropic) From Wilson Plot 25.89
    Redundancy 3.4
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.03
    Percent Possible(All) 96.8
    R Merge I(Observed) 0.557
    Mean I Over Sigma(Observed) 2.5
    Redundancy 2.7
    Number Unique Reflections(All) 1377
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 38.449
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 26368
    Number of Reflections(Observed) 26368
    Number of Reflections(R-Free) 1335
    Percent Reflections(Observed) 94.84
    R-Factor(All) 0.195
    R-Factor(Observed) 0.195
    R-Work 0.192
    R-Free 0.243
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Isotropic Thermal Model mixed
    Mean Isotropic B Value 30.1
    Anisotropic B[1][1] 1.5039
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -4.5654
    Anisotropic B[2][2] -0.1148
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.3891
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.0715
    Number of Reflections(Observed) 2683
    Number of Reflections(R-Free) 178
    Number of Reflections(R-Work) 2505
    R-Factor(R-Work) 0.2053
    R-Factor(R-Free) 0.2787
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0715
    Shell Resolution(Low) 2.1544
    Number of Reflections(Observed) 2631
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 2510
    R-Factor(R-Work) 0.2024
    R-Factor(R-Free) 0.2921
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1544
    Shell Resolution(Low) 2.2525
    Number of Reflections(Observed) 2664
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2542
    R-Factor(R-Work) 0.1969
    R-Factor(R-Free) 0.3026
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2525
    Shell Resolution(Low) 2.3712
    Number of Reflections(Observed) 2657
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2517
    R-Factor(R-Work) 0.2042
    R-Factor(R-Free) 0.3018
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3712
    Shell Resolution(Low) 2.5197
    Number of Reflections(Observed) 2666
    Number of Reflections(R-Free) 119
    Number of Reflections(R-Work) 2547
    R-Factor(R-Work) 0.1908
    R-Factor(R-Free) 0.2966
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5197
    Shell Resolution(Low) 2.7142
    Number of Reflections(Observed) 2650
    Number of Reflections(R-Free) 124
    Number of Reflections(R-Work) 2526
    R-Factor(R-Work) 0.1973
    R-Factor(R-Free) 0.2236
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7142
    Shell Resolution(Low) 2.9873
    Number of Reflections(Observed) 2639
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2500
    R-Factor(R-Work) 0.2
    R-Factor(R-Free) 0.2694
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9873
    Shell Resolution(Low) 3.4193
    Number of Reflections(Observed) 2617
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2483
    R-Factor(R-Work) 0.1801
    R-Factor(R-Free) 0.2445
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4193
    Shell Resolution(Low) 4.3071
    Number of Reflections(Observed) 2564
    Number of Reflections(R-Free) 126
    Number of Reflections(R-Work) 2438
    R-Factor(R-Work) 0.1737
    R-Factor(R-Free) 0.1893
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.3071
    Shell Resolution(Low) 38.4564
    Number of Reflections(Observed) 2597
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2465
    R-Factor(R-Work) 0.1995
    R-Factor(R-Free) 0.2245
    Percent Reflections(Observed) 91.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.007
    f_chiral_restr 0.1
    f_dihedral_angle_d 14.518
    f_angle_d 1.235
    f_bond_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3360
    Nucleic Acid Atoms 0
    Heterogen Atoms 31
    Solvent Atoms 262
     
     
  •   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,balbes
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7_650)
    model building balbes
    model building Molrep
    model building HKL3000
    data collection HKL3000
    data collection SBCCOLLECT