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X-RAY DIFFRACTION
Materials and Methods page
4GXN
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 298.0
    Details 0.1 M Bis-Tris propane pH 6.5, 16% w/v PEG 2000 MME, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 65.57 α = 90
    b = 65.57 β = 90
    c = 63.47 γ = 120
     
    Space Group
    Space Group Name:    P 32
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS HTC
    Details varimax confocal optics
    Collection Date 2011-03-21
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU FR-E+ DW
    Wavelength List 1.54
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2
    Resolution(Low) 50
    Number Reflections(All) 20700
    Number Reflections(Observed) 20659
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.125
    Redundancy 3.1
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.07
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.532
    Redundancy 3.1
    Number Unique Reflections(All) 2078
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 32.79
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 15495
    Number of Reflections(Observed) 13875
    Number of Reflections(R-Free) 715
    Percent Reflections(Observed) 89.55
    R-Factor(Observed) 0.1982
    R-Work 0.1954
    R-Free 0.249
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 32.802
    Anisotropic B[1][1] -0.06
    Anisotropic B[1][2] -0.06
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.06
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.19
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2
    Shell Resolution(Low) 2.257
    Number of Reflections(R-Free) 53
    Number of Reflections(R-Work) 863
    R-Factor(R-Work) 0.239
    R-Factor(R-Free) 0.35
    Percent Reflections(Observed) 82.08
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.003
    r_chiral_restr 0.053
    r_dihedral_angle_4_deg 15.574
    r_dihedral_angle_3_deg 12.073
    r_dihedral_angle_2_deg 35.826
    r_dihedral_angle_1_deg 5.101
    r_angle_other_deg 0.703
    r_angle_refined_deg 0.872
    r_bond_other_d 0.001
    r_bond_refined_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2211
    Nucleic Acid Atoms 0
    Heterogen Atoms 19
    Solvent Atoms 175
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement Phaser
    data reduction SCALEPACK