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X-RAY DIFFRACTION
Materials and Methods page
4GUG
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.3
    Temperature 300.0
    Details protein: 7.5 mg/mL in 0.5 M sodium chloride, 0.01 M Tris-HCl, pH 8.3, 3 mM dehydroquinic acid, crystallization condition: 0.19 M sodium chloride, 17.9% w/v PEG3350, VAPOR DIFFUSION, SITTING DROP, temperature 300K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 45.7 α = 90
    b = 64.27 β = 93.89
    c = 81.04 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 MARMOSAIC 300 mm CCD
    Details Bimorph K-B pair
    Collection Date 2012-04-03
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 21-ID-D
    Wavelength List 0.97850
    Site APS
    Beamline 21-ID-D
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.62
    Resolution(Low) 30
    Number Reflections(All) 57849
    Number Reflections(Observed) 57849
    Percent Possible(Observed) 97.2
    R Merge I(Observed) 0.054
    Redundancy 3.8
     
    High Resolution Shell Details
    Resolution(High) 1.62
    Resolution(Low) 1.65
    Percent Possible(All) 95.0
    R Merge I(Observed) 0.525
    Mean I Over Sigma(Observed) 2.6
    Redundancy 3.6
    Number Unique Reflections(All) 2802
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.62
    Resolution(Low) 29.86
    Number of Reflections(all) 54916
    Number of Reflections(Observed) 54916
    Number of Reflections(R-Free) 2908
    Percent Reflections(Observed) 97.02
    R-Factor(All) 0.17531
    R-Factor(Observed) 0.17531
    R-Work 0.17349
    R-Free 0.20827
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 36.376
    Anisotropic B[1][1] 1.04
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 2.09
    Anisotropic B[2][2] 1.17
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.33
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.62
    Shell Resolution(Low) 1.662
    Number of Reflections(R-Free) 214
    Number of Reflections(R-Work) 3864
    R-Factor(R-Work) 0.3
    R-Factor(R-Free) 0.342
    Percent Reflections(Observed) 93.47
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.002
    r_gen_planes_refined 0.01
    r_chiral_restr 0.12
    r_dihedral_angle_4_deg 17.149
    r_dihedral_angle_3_deg 11.983
    r_dihedral_angle_2_deg 33.668
    r_dihedral_angle_1_deg 4.216
    r_angle_other_deg 0.862
    r_angle_refined_deg 1.971
    r_bond_other_d 0.001
    r_bond_refined_d 0.02
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3750
    Nucleic Acid Atoms 0
    Heterogen Atoms 24
    Solvent Atoms 359
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu Max
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) HKL-3000
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    refinement REFMAC version: 5.7.0029
    model building PHASER
    data collection Blu version: Max