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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4GEJ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 295.0
    Details 0.1 M Hepes, 0.2 M Calcium Acetate, 10-12% PEG monomethyl ether 5000, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 79.74 α = 90
    b = 178.81 β = 113.32
    c = 81.89 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 CCD
    Type ADSC QUANTUM 210r
    Details mirrows
    Collection Date 2011-10-11
     
    Diffraction Radiation
    Monochromator silicon double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX1
    Wavelength List 0.9537
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.9
    Resolution(Low) 46.71
    Number Reflections(All) 46358
    Number Reflections(Observed) 46358
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.075
    B(Isotropic) From Wilson Plot 97.0
    Redundancy 7.2
     
    High Resolution Shell Details
    Resolution(High) 2.9
    Resolution(Low) 3.06
    Percent Possible(All) 98.8
    R Merge I(Observed) 0.665
    Mean I Over Sigma(Observed) 2.9
    R-Sym I(Observed) 0.665
    Redundancy 6.9
    Number Unique Reflections(All) 6708
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.9
    Resolution(Low) 46.0
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 46358
    Number of Reflections(Observed) 44007
    Number of Reflections(R-Free) 2320
    Percent Reflections(Observed) 99.42
    R-Factor(All) 0.224
    R-Factor(Observed) 0.224
    R-Work 0.212
    R-Free 0.2936
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic with TLS refinement
    Mean Isotropic B Value 89.105
    Anisotropic B[1][1] 2.36
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.2
    Anisotropic B[2][2] -3.57
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.37
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9
    Shell Resolution(Low) 2.975
    Number of Reflections(R-Free) 181
    Number of Reflections(R-Work) 3156
    R-Factor(R-Work) 0.324
    R-Factor(R-Free) 0.382
    Percent Reflections(Observed) 98.52
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.007
    r_chiral_restr 0.107
    r_dihedral_angle_4_deg 23.069
    r_dihedral_angle_3_deg 22.804
    r_dihedral_angle_2_deg 38.664
    r_dihedral_angle_1_deg 8.533
    r_angle_refined_deg 1.817
    r_bond_refined_d 0.013
     
    Coordinate Error
    Luzzati ESD(Observed) 0.487
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 10933
    Nucleic Acid Atoms 0
    Heterogen Atoms 5
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blue-Ice
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building MOLREP
    data collection Blue-Ice