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X-RAY DIFFRACTION
Materials and Methods page
4I7S
  •   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 = 48.58 α = 90
    b = 75.59 β = 93.13
    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 2010-12-09
     
    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) 1.69
    Resolution(Low) 48.51
    Number Reflections(Observed) 42023
    Percent Possible(Observed) 98.8
    R Merge I(Observed) 0.056
    B(Isotropic) From Wilson Plot 21.041
     
    High Resolution Shell Details
    Resolution(High) 1.69
    Resolution(Low) 1.78
    Percent Possible(All) 99.4
    R Merge I(Observed) 0.326
    Mean I Over Sigma(Observed) 3.02
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.69
    Resolution(Low) 48.508
    Cut-off Sigma(F) 1.99
    Number of Reflections(Observed) 42019
    Number of Reflections(R-Free) 1677
    Percent Reflections(Observed) 98.77
    R-Factor(Observed) 0.1699
    R-Work 0.1689
    R-Free 0.1957
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.7495
    Anisotropic B[1][1] -0.5595
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.2052
    Anisotropic B[2][2] -0.8355
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.395
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.69
    Shell Resolution(Low) 1.7398
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 3393
    R-Factor(R-Work) 0.2283
    R-Factor(R-Free) 0.284
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7398
    Shell Resolution(Low) 1.7959
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 3341
    R-Factor(R-Work) 0.212
    R-Factor(R-Free) 0.2563
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7959
    Shell Resolution(Low) 1.8601
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 3358
    R-Factor(R-Work) 0.1915
    R-Factor(R-Free) 0.2277
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8601
    Shell Resolution(Low) 1.9346
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 3391
    R-Factor(R-Work) 0.1766
    R-Factor(R-Free) 0.2167
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9346
    Shell Resolution(Low) 2.0226
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 3365
    R-Factor(R-Work) 0.1659
    R-Factor(R-Free) 0.2078
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0226
    Shell Resolution(Low) 2.1293
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 3343
    R-Factor(R-Work) 0.1544
    R-Factor(R-Free) 0.181
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1293
    Shell Resolution(Low) 2.2627
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 3369
    R-Factor(R-Work) 0.1544
    R-Factor(R-Free) 0.2012
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2627
    Shell Resolution(Low) 2.4374
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 3366
    R-Factor(R-Work) 0.1578
    R-Factor(R-Free) 0.1935
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4374
    Shell Resolution(Low) 2.6826
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 3372
    R-Factor(R-Work) 0.1638
    R-Factor(R-Free) 0.1919
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6826
    Shell Resolution(Low) 3.0708
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 3367
    R-Factor(R-Work) 0.1766
    R-Factor(R-Free) 0.208
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0708
    Shell Resolution(Low) 3.8686
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 3312
    R-Factor(R-Work) 0.1631
    R-Factor(R-Free) 0.1684
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8686
    Shell Resolution(Low) 48.5275
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 3365
    R-Factor(R-Work) 0.1601
    R-Factor(R-Free) 0.1704
    Percent Reflections(Observed) 97.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 13.503
    f_plane_restr 0.006
    f_chiral_restr 0.089
    f_angle_d 1.397
    f_bond_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2748
    Nucleic Acid Atoms 0
    Heterogen Atoms 83
    Solvent Atoms 355
     
     
  •   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