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X-RAY DIFFRACTION
Materials and Methods page
4DKL
  •   Crystallization Hide
    Crystallization Experiments
    Method LIPIDIC CUBIC PHASE
    pH 7
    Temperature 293.0
    Details 100 mM HEPES, pH 7.0, 300 mM lithium sulfate, 7.5% DMSO, 30-38% PEG400 in monoolein:cholesterol mixed in a 10:1 ratio, LIPIDIC CUBIC PHASE, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 70.88 α = 90
    b = 174.73 β = 107.84
    c = 68.35 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 78
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Details Mirrors
    Collection Date 2011-11-30
     
    Diffraction Radiation
    Monochromator Double crystal cryo-cooled Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-D
    Wavelength List 1.033
    Site APS
    Beamline 23-ID-D
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.8
    Resolution(Low) 30.5
    Number Reflections(Observed) 19145
    Percent Possible(Observed) 99.0
    R Merge I(Observed) 0.144
    Redundancy 5.8
     
    High Resolution Shell Details
    Resolution(High) 2.8
    Resolution(Low) 2.9
    Percent Possible(All) 99.3
    R Merge I(Observed) 0.788
    Mean I Over Sigma(Observed) 1.8
    Redundancy 5.5
    Number Unique Reflections(All) 1907
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.8
    Resolution(Low) 30.488
    Cut-off Sigma(F) 1.37
    Number of Reflections(Observed) 18974
    Number of Reflections(R-Free) 946
    Percent Reflections(Observed) 97.54
    R-Factor(Observed) 0.2347
    R-Work 0.2326
    R-Free 0.2753
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Anisotropic B[1][1] 23.1886
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 9.0174
    Anisotropic B[2][2] -18.4026
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -4.786
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8
    Shell Resolution(Low) 2.9475
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2355
    R-Factor(R-Work) 0.3295
    R-Factor(R-Free) 0.3621
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9475
    Shell Resolution(Low) 3.132
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2614
    R-Factor(R-Work) 0.2897
    R-Factor(R-Free) 0.3318
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.132
    Shell Resolution(Low) 3.3736
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2603
    R-Factor(R-Work) 0.2689
    R-Factor(R-Free) 0.3232
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3736
    Shell Resolution(Low) 3.7126
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2607
    R-Factor(R-Work) 0.2328
    R-Factor(R-Free) 0.3052
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7126
    Shell Resolution(Low) 4.2485
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2605
    R-Factor(R-Work) 0.2089
    R-Factor(R-Free) 0.2381
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.2485
    Shell Resolution(Low) 5.348
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2608
    R-Factor(R-Work) 0.2176
    R-Factor(R-Free) 0.2445
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.348
    Shell Resolution(Low) 30.4897
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2636
    R-Factor(R-Work) 0.2157
    R-Factor(R-Free) 0.2695
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.057
    f_dihedral_angle_d 12.615
    f_angle_d 0.928
    f_bond_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3476
    Nucleic Acid Atoms 0
    Heterogen Atoms 177
    Solvent Atoms 37
     
     
  •   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: 1.7.2_869)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.2_869)
    model building PHASER
    data collection Blu-Ice