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X-RAY DIFFRACTION
Materials and Methods page
3PC6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 298.0
    Details 0.6M NaFormate, 0.2M NaHEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 44.23 α = 90
    b = 56.85 β = 90
    c = 100.38 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 MAR scanner 345 mm plate
    Collection Date 2010-08-16
     
    Diffraction Radiation
    Monochromator Si 111 crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.0
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.9
    Resolution(Low) 50
    Number Reflections(All) 20146
    Number Reflections(Observed) 20146
    Percent Possible(Observed) 97.4
    R Merge I(Observed) 0.062
    Redundancy 5.1
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.97
    Percent Possible(All) 82.8
    R Merge I(Observed) 0.231
    Redundancy 3.5
    Number Unique Reflections(All) 1668
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 37.625
    Cut-off Sigma(F) 1.36
    Number of Reflections(all) 20081
    Number of Reflections(Observed) 20081
    Number of Reflections(R-Free) 1033
    Percent Reflections(Observed) 97.35
    R-Factor(Observed) 0.1823
    R-Work 0.18
    R-Free 0.2266
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 27.3142
    Anisotropic B[1][1] 8.5994
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.3794
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -8.22
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 1.9993
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2328
    R-Factor(R-Work) 0.206
    R-Factor(R-Free) 0.2917
    Percent Reflections(Observed) 85.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9993
    Shell Resolution(Low) 2.1246
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2655
    R-Factor(R-Work) 0.1896
    R-Factor(R-Free) 0.2147
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1246
    Shell Resolution(Low) 2.2886
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2754
    R-Factor(R-Work) 0.1774
    R-Factor(R-Free) 0.2522
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2886
    Shell Resolution(Low) 2.5189
    Number of Reflections(R-Free) 157
    Number of Reflections(R-Work) 2749
    R-Factor(R-Work) 0.1893
    R-Factor(R-Free) 0.2627
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5189
    Shell Resolution(Low) 2.8833
    Number of Reflections(R-Free) 167
    Number of Reflections(R-Work) 2771
    R-Factor(R-Work) 0.1936
    R-Factor(R-Free) 0.2226
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8833
    Shell Resolution(Low) 3.6321
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2828
    R-Factor(R-Work) 0.1634
    R-Factor(R-Free) 0.2013
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6321
    Shell Resolution(Low) 37.6325
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2963
    R-Factor(R-Work) 0.1711
    R-Factor(R-Free) 0.2053
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 16.095
    f_plane_restr 0.004
    f_chiral_restr 0.068
    f_angle_d 0.863
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1696
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 182
     
     
  •   Software and Computing Hide
    Computing
    Data Collection StructureStudio
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.6_289)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data processing HKL