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X-RAY DIFFRACTION
Materials and Methods page
4GL6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6.5
    Temperature 293.0
    Details 0.08M sodium cacodylate pH 6.5, 20% glycerol, 16% polyethylene glycol 8000, 0.16M magnesium acetate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 148.65 α = 90
    b = 84.14 β = 98.31
    c = 53.03 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Details double crystal monochromator
    Collection Date 2012-05-03
     
    Diffraction Radiation
    Monochromator double crystal
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL9-2
    Wavelength List 0.91162,0.97922
    Site SSRL
    Beamline BL9-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.55
    Resolution(Low) 45.97
    Number Reflections(Observed) 21164
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.076
    B(Isotropic) From Wilson Plot 62.923
     
    High Resolution Shell Details
    Resolution(High) 2.55
    Resolution(Low) 2.64
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.739
    Mean I Over Sigma(Observed) 2.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 2.55
    Resolution(Low) 45.971
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 21159
    Number of Reflections(R-Free) 1088
    Percent Reflections(Observed) 99.72
    R-Factor(Observed) 0.1899
    R-Work 0.1883
    R-Free 0.218
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 61.0088
    Anisotropic B[1][1] 3.91
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 3.53
    Anisotropic B[2][2] -4.81
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.93
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.55
    Shell Resolution(Low) 2.616
    Number of Reflections(R-Free) 79
    Number of Reflections(R-Work) 1421
    R-Factor(R-Work) 0.333
    R-Factor(R-Free) 0.353
    Percent Reflections(Observed) 99.87
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.004
    r_gen_planes_refined 0.006
    r_chiral_restr 0.098
    r_dihedral_angle_4_deg 19.905
    r_dihedral_angle_3_deg 11.245
    r_dihedral_angle_2_deg 34.916
    r_dihedral_angle_1_deg 3.608
    r_angle_other_deg 1.404
    r_angle_refined_deg 1.646
    r_bond_other_d 0.004
    r_bond_refined_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3893
    Nucleic Acid Atoms 0
    Heterogen Atoms 18
    Solvent Atoms 26
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution SHELXD,SHARP
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC5 version: 5.6.0117
    data processing Xscale version: December 29, 2011
    phasing SHARP
    phasing SHELX
    data extraction pdb_extract version: 3.10
    validation MOLPROBITY version: 3beta29