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X-RAY DIFFRACTION
Materials and Methods page
3L4J
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 4.5
    Temperature 291.0
    Details 20% 1,4-BUTANEDIOL, 0.1M SODIUM ACETATE, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 86.04 α = 90
    b = 92.42 β = 90
    c = 116.73 γ = 90
     
    Space Group
    Space Group Name:    P 21 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2009-01-22
     
    Diffraction Radiation
    Monochromator DOUBLE FLAT CRYSTAL, SI (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.3.1
    Wavelength List 1.1159
    Site ALS
    Beamline 8.3.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.48
    Resolution(Low) 50
    Number Reflections(All) 33390
    Number Reflections(Observed) 33390
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.054
    B(Isotropic) From Wilson Plot 51.9
    Redundancy 7.8
     
    High Resolution Shell Details
    Resolution(High) 2.48
    Resolution(Low) 2.57
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.642
    Mean I Over Sigma(Observed) 3.6
    Redundancy 8.0
    Number Unique Reflections(All) 3277
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.48
    Resolution(Low) 43.022
    Cut-off Sigma(F) 1.34
    Number of Reflections(Observed) 33330
    Number of Reflections(R-Free) 1630
    Percent Reflections(Observed) 99.7
    R-Factor(Observed) 0.2402
    R-Work 0.2391
    R-Free 0.2594
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 77.96
    Anisotropic B[1][1] -5.779
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -2.5679
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 8.3469
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.48
    Shell Resolution(Low) 2.5592
    Number of Reflections(Observed) 2650
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2522
    R-Factor(R-Work) 0.321
    R-Factor(R-Free) 0.4057
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5592
    Shell Resolution(Low) 2.6418
    Number of Reflections(Observed) 2749
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2617
    R-Factor(R-Work) 0.3245
    R-Factor(R-Free) 0.3721
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6418
    Shell Resolution(Low) 2.7362
    Number of Reflections(Observed) 2747
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2612
    R-Factor(R-Work) 0.3094
    R-Factor(R-Free) 0.3671
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7362
    Shell Resolution(Low) 2.8457
    Number of Reflections(Observed) 2741
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2609
    R-Factor(R-Work) 0.3084
    R-Factor(R-Free) 0.3653
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8457
    Shell Resolution(Low) 2.9752
    Number of Reflections(Observed) 2765
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2628
    R-Factor(R-Work) 0.2999
    R-Factor(R-Free) 0.3935
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9752
    Shell Resolution(Low) 3.132
    Number of Reflections(Observed) 2751
    Number of Reflections(R-Free) 117
    Number of Reflections(R-Work) 2634
    R-Factor(R-Work) 0.3019
    R-Factor(R-Free) 0.3343
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.132
    Shell Resolution(Low) 3.3282
    Number of Reflections(Observed) 2760
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2620
    R-Factor(R-Work) 0.2787
    R-Factor(R-Free) 0.3086
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3282
    Shell Resolution(Low) 3.585
    Number of Reflections(Observed) 2789
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2643
    R-Factor(R-Work) 0.2591
    R-Factor(R-Free) 0.2552
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.585
    Shell Resolution(Low) 3.9456
    Number of Reflections(Observed) 2755
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2608
    R-Factor(R-Work) 0.2186
    R-Factor(R-Free) 0.2143
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.9456
    Shell Resolution(Low) 4.516
    Number of Reflections(Observed) 2823
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2678
    R-Factor(R-Work) 0.1818
    R-Factor(R-Free) 0.2226
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.516
    Shell Resolution(Low) 5.6876
    Number of Reflections(Observed) 2825
    Number of Reflections(R-Free) 129
    Number of Reflections(R-Work) 2696
    R-Factor(R-Work) 0.1934
    R-Factor(R-Free) 0.1809
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.6876
    Shell Resolution(Low) 43.0289
    Number of Reflections(Observed) 2975
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2833
    R-Factor(R-Work) 0.2014
    R-Factor(R-Free) 0.212
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.008
    f_chiral_restr 0.097
    f_dihedral_angle_d 19.282
    f_angle_d 1.216
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5941
    Nucleic Acid Atoms 1039
    Heterogen Atoms 20
    Solvent Atoms 113
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.5_2)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.5_2)
    model building PHASER
    data collection BLU-ICE