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X-RAY DIFFRACTION
Materials and Methods page
3U41
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 294.0
    Details 1.25M Ammonium Sulfate, 11% (v/v) Glycerol, 0.1M Bis-Tris pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 94.28 α = 90
    b = 96.22 β = 90
    c = 210.24 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX300HE
    Details DCM with cryo-cooled 1st crystal sagittally bent 2nd crystal followed by vertically focusing mirror.
    Collection Date 2011-05-26
     
    Diffraction Radiation
    Monochromator double crystal monochromator (DCM)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CLSI BEAMLINE 08B1-1
    Wavelength List 1.105
    Site CLSI
    Beamline 08B1-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.12
    Resolution(Low) 50
    Number Reflections(Observed) 63206
    Percent Possible(Observed) 98.4
    R Merge I(Observed) 0.109
    Redundancy 8.6
     
    High Resolution Shell Details
    Resolution(High) 2.12
    Resolution(Low) 2.2
    Percent Possible(All) 94.4
    R Merge I(Observed) 0.981
    Redundancy 5.2
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.5
    Resolution(Low) 48.6
    Number of Reflections(all) 107698
    Number of Reflections(Observed) 59979
    Number of Reflections(R-Free) 3180
    Percent Reflections(Observed) 94.1
    R-Factor(Observed) 0.23189
    R-Work 0.2298
    R-Free 0.27068
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 49.563
    Anisotropic B[1][1] 4.01
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.38
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.63
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.498
    Shell Resolution(Low) 2.563
    Number of Reflections(R-Free) 217
    Number of Reflections(R-Work) 4406
    R-Factor(R-Work) 0.288
    R-Factor(R-Free) 0.358
    Percent Reflections(Observed) 95.05
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 0.611
    r_scbond_it 0.366
    r_mcangle_it 0.236
    r_mcbond_it 0.122
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.003
    r_chiral_restr 0.048
    r_dihedral_angle_4_deg 14.816
    r_dihedral_angle_3_deg 13.168
    r_dihedral_angle_2_deg 29.671
    r_dihedral_angle_1_deg 4.442
    r_angle_other_deg 0.71
    r_angle_refined_deg 0.903
    r_bond_other_d 0.001
    r_bond_refined_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 13167
    Nucleic Acid Atoms 0
    Heterogen Atoms 282
    Solvent Atoms 458
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MxDC
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution PHASES
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    data reduction HKL