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X-RAY DIFFRACTION
Materials and Methods page
4GJF
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8
    Temperature 298.0
    Details cadmium sulphate octahydrate 0.02M, sodium acetate 0.6M, 0.1M Tris-HCl, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 49.25 α = 90
    b = 49.25 β = 90
    c = 113.38 γ = 120
     
    Space Group
    Space Group Name:    P 61 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2011-07-21
     
    Diffraction Radiation
    Monochromator double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CLSI BEAMLINE 08ID-1
    Wavelength List 0.97949
    Site CLSI
    Beamline 08ID-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.9
    Resolution(Low) 50
    Number Reflections(All) 7012
    Number Reflections(Observed) 6990
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.062
    Redundancy 9.5
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.97
    Percent Possible(All) 99.8
    R Merge I(Observed) 0.327
    Redundancy 9.8
    Number Unique Reflections(All) 662
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 42.65
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 6561
    Number of Reflections(Observed) 6891
    Number of Reflections(R-Free) 330
    Percent Reflections(Observed) 98.91
    R-Factor(All) 0.1539
    R-Factor(Observed) 0.1433
    R-Work 0.1416
    R-Free 0.1777
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 40.5142
    Anisotropic B[1][1] 0.88
    Anisotropic B[1][2] 0.44
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.88
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.33
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.897
    Shell Resolution(Low) 1.946
    Number of Reflections(R-Free) 22
    Number of Reflections(R-Work) 454
    R-Factor(R-Work) 0.179
    R-Factor(R-Free) 0.234
    Percent Reflections(Observed) 98.55
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 3.483
    r_bond_refined_d 0.016
    r_angle_refined_deg 1.64
    r_dihedral_angle_1_deg 6.595
    r_dihedral_angle_2_deg 43.376
    r_dihedral_angle_3_deg 15.464
    r_dihedral_angle_4_deg 22.994
    r_chiral_restr 0.109
    r_gen_planes_refined 0.01
    r_mcbond_it 2.429
    r_mcangle_it 3.984
    r_scbond_it 6.11
    r_scangle_it 9.173
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 674
    Nucleic Acid Atoms 0
    Heterogen Atoms 19
    Solvent Atoms 45
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MxDC
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution Molrep
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.5.0109
    data reduction HKL