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X-RAY DIFFRACTION
Materials and Methods page
4GP7
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 298.0
    Details 100mM sodium citrate, 5mM DTT, 100mM MgCl2, 16% PEG 3350, 2mM ATP, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 45.31 α = 90
    b = 66.78 β = 90
    c = 119.55 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 130
     
    Diffraction Detector
    Detector PIXEL
    Type DECTRIS PILATUS 6M
    Collection Date 2012-07-02
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X25
    Wavelength List 0.97
    Site NSLS
    Beamline X25
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2
    Resolution(Low) 50
    Number Reflections(Observed) 25287
    Percent Possible(Observed) 99.8
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.03
    Percent Possible(All) 99.2
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.0
    Resolution(Low) 44.538
    Cut-off Sigma(F) 0.21
    Number of Reflections(Observed) 24992
    Number of Reflections(R-Free) 1977
    Percent Reflections(Observed) 98.83
    R-Factor(Observed) 0.1797
    R-Work 0.1753
    R-Free 0.2299
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Anisotropic B[1][1] 0.1328
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.8749
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.0077
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.0496
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1540
    R-Factor(R-Work) 0.2346
    R-Factor(R-Free) 0.3519
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0496
    Shell Resolution(Low) 2.105
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1578
    R-Factor(R-Work) 0.2103
    R-Factor(R-Free) 0.2958
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.105
    Shell Resolution(Low) 2.167
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 1608
    R-Factor(R-Work) 0.1906
    R-Factor(R-Free) 0.2537
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.167
    Shell Resolution(Low) 2.2369
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1610
    R-Factor(R-Work) 0.1753
    R-Factor(R-Free) 0.2288
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2369
    Shell Resolution(Low) 2.3169
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1611
    R-Factor(R-Work) 0.1718
    R-Factor(R-Free) 0.277
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3169
    Shell Resolution(Low) 2.4096
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1628
    R-Factor(R-Work) 0.1866
    R-Factor(R-Free) 0.2549
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4096
    Shell Resolution(Low) 2.5193
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1658
    R-Factor(R-Work) 0.1937
    R-Factor(R-Free) 0.2764
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5193
    Shell Resolution(Low) 2.6521
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 1623
    R-Factor(R-Work) 0.1855
    R-Factor(R-Free) 0.2548
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6521
    Shell Resolution(Low) 2.8182
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 1648
    R-Factor(R-Work) 0.1768
    R-Factor(R-Free) 0.2229
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8182
    Shell Resolution(Low) 3.0358
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1665
    R-Factor(R-Work) 0.1847
    R-Factor(R-Free) 0.2414
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0358
    Shell Resolution(Low) 3.3412
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1663
    R-Factor(R-Work) 0.1779
    R-Factor(R-Free) 0.2366
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3412
    Shell Resolution(Low) 3.8245
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 1677
    R-Factor(R-Work) 0.1676
    R-Factor(R-Free) 0.1979
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8245
    Shell Resolution(Low) 4.8175
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1706
    R-Factor(R-Work) 0.1341
    R-Factor(R-Free) 0.1758
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.8175
    Shell Resolution(Low) 44.5492
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 1800
    R-Factor(R-Work) 0.1661
    R-Factor(R-Free) 0.1807
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.071
    f_dihedral_angle_d 16.638
    f_angle_d 1.222
    f_bond_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2738
    Nucleic Acid Atoms 0
    Heterogen Atoms 78
    Solvent Atoms 188
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CBASS
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.3_928)
    model building PHENIX
    data collection CBASS