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X-RAY DIFFRACTION
Materials and Methods page
4JV1
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.4
    Temperature 298.0
    Details 50 MM TRIS HCL, 15% PEG3350, 100MM CALCIUM DIACETATE, 2.5% GLYCEROL, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 93.27 α = 90
    b = 102.18 β = 90
    c = 52.73 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2009-10-15
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 21-ID-F
    Wavelength 0.979
    Site APS
    Beamline 21-ID-F
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.3
    Resolution(Low) 50
    Number Reflections(Observed) 23031
    R Merge I(Observed) 0.059
     
    High Resolution Shell Details
    Resolution(High) 2.3
    Resolution(Low) 2.38
    R Merge I(Observed) 0.49
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.3
    Resolution(Low) 41.87
    Cut-off Sigma(F) 1.36
    Number of Reflections(Observed) 23031
    Number of Reflections(R-Free) 2000
    Percent Reflections(Observed) 98.8
    R-Factor(Observed) 0.218
    R-Work 0.213
    R-Free 0.269
     
    Temperature Factor Modeling
    Mean Isotropic B Value 53.8
    Anisotropic B[1][1] 2.5845
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.6585
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.926
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2918
    Shell Resolution(Low) 2.3491
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 1312
    R-Factor(R-Work) 0.3211
    R-Factor(R-Free) 0.4305
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3491
    Shell Resolution(Low) 2.4126
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 1440
    R-Factor(R-Work) 0.3116
    R-Factor(R-Free) 0.4031
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4126
    Shell Resolution(Low) 2.4836
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1484
    R-Factor(R-Work) 0.2946
    R-Factor(R-Free) 0.4002
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4836
    Shell Resolution(Low) 2.5637
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1504
    R-Factor(R-Work) 0.2891
    R-Factor(R-Free) 0.3592
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5637
    Shell Resolution(Low) 2.6554
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1500
    R-Factor(R-Work) 0.2815
    R-Factor(R-Free) 0.3767
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6554
    Shell Resolution(Low) 2.7617
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1516
    R-Factor(R-Work) 0.2658
    R-Factor(R-Free) 0.3209
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7617
    Shell Resolution(Low) 2.8873
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1481
    R-Factor(R-Work) 0.2573
    R-Factor(R-Free) 0.3147
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8873
    Shell Resolution(Low) 3.0395
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 1515
    R-Factor(R-Work) 0.2548
    R-Factor(R-Free) 0.3486
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0395
    Shell Resolution(Low) 3.2299
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1508
    R-Factor(R-Work) 0.2465
    R-Factor(R-Free) 0.3025
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2299
    Shell Resolution(Low) 3.4791
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1522
    R-Factor(R-Work) 0.2172
    R-Factor(R-Free) 0.2844
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4791
    Shell Resolution(Low) 3.829
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 1525
    R-Factor(R-Work) 0.212
    R-Factor(R-Free) 0.261
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.829
    Shell Resolution(Low) 4.3826
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 1545
    R-Factor(R-Work) 0.1745
    R-Factor(R-Free) 0.2122
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.3826
    Shell Resolution(Low) 5.5196
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 1552
    R-Factor(R-Work) 0.1718
    R-Factor(R-Free) 0.2222
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.5196
    Shell Resolution(Low) 41.8773
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 1627
    R-Factor(R-Work) 0.1869
    R-Factor(R-Free) 0.2327
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_angle_d 1.2
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2744
    Nucleic Acid Atoms 575
    Heterogen Atoms 35
    Solvent Atoms 84
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution CNS
    Structure Refinement PHENIX (PHENIX.REFINE: 1.7.2_869)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix