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X-RAY DIFFRACTION
Materials and Methods page
4DZ9
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.8
    Temperature 298.0
    Details 1.6M Na-Citrate and 50 mM Tris-Cl at pH 7.8 used as precipitant solution. DMSO was used to dissolve the inhibitor, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42.25 α = 90
    b = 41.3 β = 104.09
    c = 72.01 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 IMAGE PLATE
    Type RIGAKU RAXIS IV++
    Collection Date 2010-07-27
     
    Diffraction Radiation
    Monochromator Varimax Optics
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RUH3R
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.49
    Resolution(Low) 50
    Number Reflections(All) 39670
    Number Reflections(Observed) 37765
    Percent Possible(Observed) 95.2
    R Merge I(Observed) 0.046
    Redundancy 4.7
     
    High Resolution Shell Details
    Resolution(High) 1.49
    Resolution(Low) 1.54
    Percent Possible(All) 88.2
    R Merge I(Observed) 0.174
    Redundancy 4.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.491
    Resolution(Low) 23.864
    Cut-off Sigma(F) 1.34
    Number of Reflections(all) 39670
    Number of Reflections(Observed) 37749
    Number of Reflections(R-Free) 1873
    Percent Reflections(Observed) 95.44
    R-Factor(Observed) 0.1645
    R-Work 0.1633
    R-Free 0.187
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -0.4915
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.4284
    Anisotropic B[2][2] -1.3432
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.8347
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.491
    Shell Resolution(Low) 1.5313
    Number of Reflections(R-Free) 127
    Number of Reflections(R-Work) 2580
    R-Factor(R-Work) 0.3919
    R-Factor(R-Free) 0.3932
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5313
    Shell Resolution(Low) 1.5764
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2639
    R-Factor(R-Work) 0.3042
    R-Factor(R-Free) 0.3496
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5764
    Shell Resolution(Low) 1.6272
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2692
    R-Factor(R-Work) 0.2282
    R-Factor(R-Free) 0.2576
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6272
    Shell Resolution(Low) 1.6854
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2693
    R-Factor(R-Work) 0.1715
    R-Factor(R-Free) 0.2001
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6854
    Shell Resolution(Low) 1.7528
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2705
    R-Factor(R-Work) 0.155
    R-Factor(R-Free) 0.1964
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7528
    Shell Resolution(Low) 1.8326
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2710
    R-Factor(R-Work) 0.1366
    R-Factor(R-Free) 0.1805
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8326
    Shell Resolution(Low) 1.9292
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2777
    R-Factor(R-Work) 0.1398
    R-Factor(R-Free) 0.1878
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9292
    Shell Resolution(Low) 2.05
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2773
    R-Factor(R-Work) 0.1436
    R-Factor(R-Free) 0.1649
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.05
    Shell Resolution(Low) 2.2081
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2785
    R-Factor(R-Work) 0.1443
    R-Factor(R-Free) 0.1694
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2081
    Shell Resolution(Low) 2.4302
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2830
    R-Factor(R-Work) 0.1428
    R-Factor(R-Free) 0.164
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4302
    Shell Resolution(Low) 2.7814
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2856
    R-Factor(R-Work) 0.1501
    R-Factor(R-Free) 0.1732
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7814
    Shell Resolution(Low) 3.5024
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2886
    R-Factor(R-Work) 0.1597
    R-Factor(R-Free) 0.1569
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5024
    Shell Resolution(Low) 23.8666
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2950
    R-Factor(R-Work) 0.1682
    R-Factor(R-Free) 0.2026
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.007
    f_chiral_restr 0.084
    f_dihedral_angle_d 14.551
    f_angle_d 1.387
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2049
    Nucleic Acid Atoms 0
    Heterogen Atoms 31
    Solvent Atoms 184
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Solution phenix
    Structure Refinement PHENIX (phenix.refine: 1.7.2_869)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data reduction HKL