POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4BD7
  •   Crystallization Hide
    Crystallization Experiments
    Details 1.8 M NH4SO4, 0.1 M HEPES PH 6.5, 10 MM PRCL3
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 142.24 α = 90
    b = 142.24 β = 90
    c = 86.78 γ = 120
     
    Space Group
    Space Group Name:    H 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD (QUANTUM 315R)
    Type ADSC
    Collection Date 2011-04-02
     
    Diffraction Radiation
    Monochromator SI(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX2
    Wavelength 1.5498
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.8
    Resolution(Low) 50
    Number Reflections(Observed) 16061
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.09
    B(Isotropic) From Wilson Plot 73.61
    Redundancy 5.0
     
    High Resolution Shell Details
    Resolution(High) 2.8
    Resolution(Low) 2.9
    Percent Possible(All) 98.4
    R Merge I(Observed) 0.79
    Mean I Over Sigma(Observed) 1.87
    Redundancy 3.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.801
    Resolution(Low) 41.026
    Cut-off Sigma(F) 1.97
    Number of Reflections(Observed) 16050
    Number of Reflections(R-Free) 806
    Percent Reflections(Observed) 99.68
    R-Factor(Observed) 0.2042
    R-Work 0.2006
    R-Free 0.274
     
    Temperature Factor Modeling
    Data Not Available
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.801
    Shell Resolution(Low) 2.9765
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2523
    R-Factor(R-Work) 0.325
    R-Factor(R-Free) 0.4169
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9765
    Shell Resolution(Low) 3.2062
    Number of Reflections(R-Free) 127
    Number of Reflections(R-Work) 2573
    R-Factor(R-Work) 0.2596
    R-Factor(R-Free) 0.3187
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2062
    Shell Resolution(Low) 3.5287
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2494
    R-Factor(R-Work) 0.1997
    R-Factor(R-Free) 0.2733
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5287
    Shell Resolution(Low) 4.0389
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2547
    R-Factor(R-Work) 0.1859
    R-Factor(R-Free) 0.2531
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0389
    Shell Resolution(Low) 5.0871
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2563
    R-Factor(R-Work) 0.1789
    R-Factor(R-Free) 0.2696
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.0871
    Shell Resolution(Low) 41.0303
    Number of Reflections(R-Free) 126
    Number of Reflections(R-Work) 2544
    R-Factor(R-Work) 0.1937
    R-Factor(R-Free) 0.2584
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.078
    f_dihedral_angle_d 15.61
    f_angle_d 1.256
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4209
    Nucleic Acid Atoms 0
    Heterogen Atoms 3
    Solvent Atoms 15
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHENIX
    Structure Refinement PHENIX (PHENIX.REFINE: 1.8.1_1168)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE: 1.8.1_1168)
    model building PHENIX