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X-RAY DIFFRACTION
Materials and Methods page
4I7J
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, hanging drop
    pH 4.5
    Temperature 277.0
    Details 0.1 M sodium acetate, pH 4.5, 30% (w/v) PEG-6000, 0.3 M LiSO4, 3% (w/v) TMAO, 50 mM 2-mercaptoethanol, 50 mM 2-hydroxyethyl disulfide, vapor diffusion, hanging drop, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.39 α = 90
    b = 75.58 β = 93.28
    c = 52.6 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2010-10-20
     
    Diffraction Radiation
    Monochromator two flat Si(111) crystals, mounted in a model DCM from Khozu
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.3.1
    Wavelength List 1.116
    Site ALS
    Beamline 8.3.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.67
    Resolution(Low) 48.31
    Number Reflections(Observed) 40938
    Percent Possible(Observed) 93.3
    R Merge I(Observed) 0.061
    B(Isotropic) From Wilson Plot 19.954
     
    High Resolution Shell Details
    Resolution(High) 1.67
    Resolution(Low) 1.76
    Percent Possible(All) 97.2
    R Merge I(Observed) 0.318
    Mean I Over Sigma(Observed) 3.06
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method PHENIX
    reflnsShellList 1.67
    Resolution(Low) 48.311
    Cut-off Sigma(F) 1.99
    Number of Reflections(Observed) 40933
    Number of Reflections(R-Free) 1636
    Percent Reflections(Observed) 93.26
    R-Factor(Observed) 0.2062
    R-Work 0.2048
    R-Free 0.2393
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 13.6937
    Anisotropic B[1][1] -1.4636
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.0938
    Anisotropic B[2][2] 1.0687
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.395
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.67
    Shell Resolution(Low) 1.7191
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 3388
    R-Factor(R-Work) 0.2558
    R-Factor(R-Free) 0.3072
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7191
    Shell Resolution(Low) 1.7746
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 3379
    R-Factor(R-Work) 0.2379
    R-Factor(R-Free) 0.2929
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7746
    Shell Resolution(Low) 1.8381
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 3381
    R-Factor(R-Work) 0.2253
    R-Factor(R-Free) 0.274
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8381
    Shell Resolution(Low) 1.9117
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 3367
    R-Factor(R-Work) 0.2215
    R-Factor(R-Free) 0.282
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9117
    Shell Resolution(Low) 1.9987
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 3357
    R-Factor(R-Work) 0.2067
    R-Factor(R-Free) 0.2548
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9987
    Shell Resolution(Low) 2.104
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 3328
    R-Factor(R-Work) 0.1949
    R-Factor(R-Free) 0.2096
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.104
    Shell Resolution(Low) 2.2359
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 3269
    R-Factor(R-Work) 0.1864
    R-Factor(R-Free) 0.2492
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2359
    Shell Resolution(Low) 2.4085
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 3231
    R-Factor(R-Work) 0.1947
    R-Factor(R-Free) 0.2578
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4085
    Shell Resolution(Low) 2.6509
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 3206
    R-Factor(R-Work) 0.2046
    R-Factor(R-Free) 0.2644
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6509
    Shell Resolution(Low) 3.0344
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 3183
    R-Factor(R-Work) 0.2142
    R-Factor(R-Free) 0.2245
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0344
    Shell Resolution(Low) 3.8228
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 3118
    R-Factor(R-Work) 0.1901
    R-Factor(R-Free) 0.2015
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8228
    Shell Resolution(Low) 48.3312
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 3090
    R-Factor(R-Work) 0.1975
    R-Factor(R-Free) 0.2102
    Percent Reflections(Observed) 86.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 14.37
    f_plane_restr 0.006
    f_chiral_restr 0.086
    f_angle_d 1.355
    f_bond_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2728
    Nucleic Acid Atoms 0
    Heterogen Atoms 81
    Solvent Atoms 265
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) XSCALE
    Data Reduction (data scaling) XSCALE
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.7.1_743)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    data reduction Xscale