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X-RAY DIFFRACTION
Materials and Methods page
4I31
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 291.0
    Details 3M NaCl, 0.1M Na Citrate pH6, 2.5% t-butanol, 20mM OBG, 5mM DTT, 3mM sodium azide, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 94.24 α = 90
    b = 94.24 β = 90
    c = 82.07 γ = 120
     
    Space Group
    Space Group Name:    P 61
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX SX-165mm
    Details VariMax-HF
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU FR-E SUPERBRIGHT
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.93
    Resolution(Low) 57.9
    Number Reflections(All) 31178
    Number Reflections(Observed) 31114
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.04
    Redundancy 4.56
     
    High Resolution Shell Details
    Resolution(High) 1.93
    Resolution(Low) 2.0
    Percent Possible(All) 99.8
    R Merge I(Observed) 0.317
    Mean I Over Sigma(Observed) 3.9
    Redundancy 3.86
    Number Unique Reflections(All) 3068
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9301
    Resolution(Low) 36.541
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 30772
    Number of Reflections(R-Free) 1557
    Percent Reflections(Observed) 98.69
    R-Factor(Observed) 0.2175
    R-Work 0.2159
    R-Free 0.247
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -2.5977
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -2.5977
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 5.1953
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9301
    Shell Resolution(Low) 1.9924
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2540
    R-Factor(R-Work) 0.3725
    R-Factor(R-Free) 0.4339
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9924
    Shell Resolution(Low) 2.0636
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2586
    R-Factor(R-Work) 0.3287
    R-Factor(R-Free) 0.3224
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0636
    Shell Resolution(Low) 2.1462
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2614
    R-Factor(R-Work) 0.2913
    R-Factor(R-Free) 0.3157
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1462
    Shell Resolution(Low) 2.2439
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2661
    R-Factor(R-Work) 0.2582
    R-Factor(R-Free) 0.2899
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2439
    Shell Resolution(Low) 2.3622
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2669
    R-Factor(R-Work) 0.2401
    R-Factor(R-Free) 0.2761
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3622
    Shell Resolution(Low) 2.5101
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2655
    R-Factor(R-Work) 0.2461
    R-Factor(R-Free) 0.2936
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5101
    Shell Resolution(Low) 2.7039
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2686
    R-Factor(R-Work) 0.2395
    R-Factor(R-Free) 0.285
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7039
    Shell Resolution(Low) 2.9759
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2681
    R-Factor(R-Work) 0.219
    R-Factor(R-Free) 0.2273
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9759
    Shell Resolution(Low) 3.4062
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 2683
    R-Factor(R-Work) 0.2025
    R-Factor(R-Free) 0.271
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4062
    Shell Resolution(Low) 4.2904
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2713
    R-Factor(R-Work) 0.1916
    R-Factor(R-Free) 0.229
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.2904
    Shell Resolution(Low) 36.5474
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2727
    R-Factor(R-Work) 0.1979
    R-Factor(R-Free) 0.2028
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.006
    f_chiral_restr 0.087
    f_dihedral_angle_d 15.175
    f_angle_d 1.374
    f_bond_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2834
    Nucleic Acid Atoms 0
    Heterogen Atoms 118
    Solvent Atoms 109
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) d*TREK
    Data Reduction (data scaling) d*TREK
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7_650)
    model building PHENIX
    data collection MAR345dtb