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X-RAY DIFFRACTION
Materials and Methods page
4HBH
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.5
    Temperature 298.0
    Details drop: 13 mg/mL protein, 0.8 M potassium phosphate, 5 mM Tris, 5 uM EDTA, 4.0% 1,2,3-heptanetriol, 2.0% dioxane, 140 mM sodium chloride, 0.045% LDAO, reservoir: 1.6 M potassium phosphate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 139.72 α = 90
    b = 139.72 β = 90
    c = 183.98 γ = 120
     
    Space Group
    Space Group Name:    P 31 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2012-03-23
     
    Diffraction Radiation
    Monochromator diamond(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 21-ID-G
    Wavelength 1.00000
    Site APS
    Beamline 21-ID-G
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.93
    Resolution(Low) 121
    Number Reflections(Observed) 45001
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.125
    B(Isotropic) From Wilson Plot 55.99
     
    High Resolution Shell Details
    Resolution(High) 2.93
    Resolution(Low) 3.01
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.793
    Mean I Over Sigma(Observed) 2.89
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.93
    Resolution(Low) 121.0
    Number of Reflections(Observed) 44997
    Number of Reflections(R-Free) 2250
    Percent Reflections(Observed) 99.6
    R-Factor(Observed) 0.187
    R-Work 0.185
    R-Free 0.226
     
    Temperature Factor Modeling
    Mean Isotropic B Value 48.49
    Anisotropic B[1][1] -0.03
    Anisotropic B[1][2] -0.01
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.03
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.04
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.93
    Shell Resolution(Low) 3.01
    Number of Reflections(R-Free) 163
    Number of Reflections(R-Work) 3100
    R-Factor(R-Work) 0.265
    R-Factor(R-Free) 0.323
    Percent Reflections(Observed) 99.97
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.655
    r_scbond_it 2.306
    r_mcangle_it 1.558
    r_mcbond_it 0.806
    r_gen_planes_refined 0.009
    r_chiral_restr 0.138
    r_dihedral_angle_4_deg 23.924
    r_dihedral_angle_3_deg 21.08
    r_dihedral_angle_2_deg 35.199
    r_dihedral_angle_1_deg 7.376
    r_angle_refined_deg 2.364
    r_bond_refined_d 0.021
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6391
    Nucleic Acid Atoms 0
    Heterogen Atoms 507
    Solvent Atoms 21
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution Refmac5
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    data reduction Xscale