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X-RAY DIFFRACTION
Materials and Methods page
3SN6
  •   Crystallization Hide
    Crystallization Experiments
    Method Lipidic cubic phase
    pH 6.5
    Temperature 293.0
    Details 350-450 mM potassium nitrate, 100 mM MES, 1 mM TCEP, 10 mM phosphonoformate, 0.01 mM BI167107, 18-22% PEG400. Crystals were grown in a 10:1 (w:w) MAG 7.7:cholesterol lipid mix. , pH 6.5, Lipidic cubic phase, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 119.34 α = 90
    b = 64.56 β = 91.67
    c = 131.24 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 78
    Diffrn ID 2
    Data Collection Temperature 78
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Details Mirrors
    Collection Date 2011-04-24
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Details Mirrors
    Collection Date 2011-04-15
     
    Diffraction Radiation
    Monochromator Si(111) double crystal
    Diffraction Protocol SINGLE WAVELENGTH
    Monochromator Si(111) double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-B
    Wavelength List 1.033
    Site APS
    Beamline 23-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 3.2
    Resolution(Low) 50
    Number Reflections(Observed) 31685
    Percent Possible(Observed) 91.2
    R Merge I(Observed) 0.156
    Redundancy 6.5
     
    High Resolution Shell Details
    Resolution(High) 3.2
    Resolution(Low) 3.26
    Percent Possible(All) 53.9
    R Merge I(Observed) 0.553
    Mean I Over Sigma(Observed) 1.81
    Redundancy 5.0
    Number Unique Reflections(All) 943
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.2
    Resolution(Low) 40.675
    Cut-off Sigma(F) 1.35
    Number of Reflections(Observed) 31073
    Number of Reflections(R-Free) 1557
    Percent Reflections(Observed) 92.82
    R-Factor(Observed) 0.2282
    R-Work 0.2255
    R-Free 0.2772
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -7.0864
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.9451
    Anisotropic B[2][2] 2.9389
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.7946
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2
    Shell Resolution(Low) 3.3033
    Number of Reflections(R-Free) 100
    Number of Reflections(R-Work) 1768
    R-Factor(R-Work) 0.3098
    R-Factor(R-Free) 0.3642
    Percent Reflections(Observed) 62.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3033
    Shell Resolution(Low) 3.4213
    Number of Reflections(R-Free) 116
    Number of Reflections(R-Work) 2263
    R-Factor(R-Work) 0.3156
    R-Factor(R-Free) 0.407
    Percent Reflections(Observed) 79.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4213
    Shell Resolution(Low) 3.5582
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2565
    R-Factor(R-Work) 0.3027
    R-Factor(R-Free) 0.3454
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5582
    Shell Resolution(Low) 3.72
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 2727
    R-Factor(R-Work) 0.2844
    R-Factor(R-Free) 0.3503
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.72
    Shell Resolution(Low) 3.916
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2829
    R-Factor(R-Work) 0.223
    R-Factor(R-Free) 0.2666
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.916
    Shell Resolution(Low) 4.1611
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 2855
    R-Factor(R-Work) 0.19
    R-Factor(R-Free) 0.2457
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1611
    Shell Resolution(Low) 4.482
    Number of Reflections(R-Free) 170
    Number of Reflections(R-Work) 2846
    R-Factor(R-Work) 0.1618
    R-Factor(R-Free) 0.2004
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.482
    Shell Resolution(Low) 4.9324
    Number of Reflections(R-Free) 177
    Number of Reflections(R-Work) 2867
    R-Factor(R-Work) 0.1663
    R-Factor(R-Free) 0.2265
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.9324
    Shell Resolution(Low) 5.6445
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2933
    R-Factor(R-Work) 0.2076
    R-Factor(R-Free) 0.2562
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.6445
    Shell Resolution(Low) 7.1053
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2916
    R-Factor(R-Work) 0.2525
    R-Factor(R-Free) 0.3149
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.1053
    Shell Resolution(Low) 40.6785
    Number of Reflections(R-Free) 180
    Number of Reflections(R-Work) 2947
    R-Factor(R-Work) 0.2297
    R-Factor(R-Free) 0.2856
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.003
    f_chiral_restr 0.051
    f_dihedral_angle_d 12.385
    f_angle_d 0.709
    f_bond_d 0.003
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 10247
    Nucleic Acid Atoms 0
    Heterogen Atoms 27
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu-Ice
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution Phaser
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7_650)
    model building Phaser
    data collection Blu-Ice