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X-RAY DIFFRACTION
Materials and Methods page
4IGD
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 293.0
    Details 20%(v/v) PEG400, 0.1M imidazole, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 63.31 α = 90
    b = 69.61 β = 90
    c = 117.68 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 210
    Details Sagitally focusing Ge(220) and a multilayer
    Collection Date 2011-04-21
     
    Diffraction Radiation
    Monochromator Diamond (111), Ge(220)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-1
    Wavelength List 0.9334
    Site ESRF
    Beamline ID14-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.5
    Resolution(Low) 20
    Number Reflections(All) 18608
    Number Reflections(Observed) 18608
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.073
    B(Isotropic) From Wilson Plot 53.502
    Redundancy 6.84
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.56
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.632
    Mean I Over Sigma(Observed) 3.37
    Redundancy 6.14
    Number Unique Reflections(All) 1358
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.5
    Resolution(Low) 19.971
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 17273
    Number of Reflections(Observed) 17273
    Number of Reflections(R-Free) 878
    Percent Reflections(Observed) 93.01
    R-Factor(All) 0.2207
    R-Factor(Observed) 0.2207
    R-Work 0.2193
    R-Free 0.2482
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Anisotropic B[1][1] 5.2295
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -7.7581
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.5286
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.6563
    Number of Reflections(R-Free) 124
    Number of Reflections(R-Work) 2324
    R-Factor(R-Work) 0.3513
    R-Factor(R-Free) 0.3803
    Percent Reflections(Observed) 81.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6563
    Shell Resolution(Low) 2.8609
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2534
    R-Factor(R-Work) 0.3
    R-Factor(R-Free) 0.3498
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8609
    Shell Resolution(Low) 3.1478
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 2698
    R-Factor(R-Work) 0.2672
    R-Factor(R-Free) 0.3305
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1478
    Shell Resolution(Low) 3.6009
    Number of Reflections(R-Free) 171
    Number of Reflections(R-Work) 2827
    R-Factor(R-Work) 0.2399
    R-Factor(R-Free) 0.2614
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6009
    Shell Resolution(Low) 4.5281
    Number of Reflections(R-Free) 158
    Number of Reflections(R-Work) 2933
    R-Factor(R-Work) 0.1853
    R-Factor(R-Free) 0.2099
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.5281
    Shell Resolution(Low) 19.9717
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 3079
    R-Factor(R-Work) 0.179
    R-Factor(R-Free) 0.1881
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 11.793
    f_plane_restr 0.003
    f_chiral_restr 0.04
    f_angle_d 0.569
    f_bond_d 0.002
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3029
    Nucleic Acid Atoms 0
    Heterogen Atoms 12
    Solvent Atoms 91
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MxCuBe
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution MOLREP
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7_650)
    model building MOLREP
    data collection MxCuBe