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X-RAY DIFFRACTION
Materials and Methods page
1J5Q
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 293.0
    Details 3.5~4M Sodium Formate, 50mM Tris pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 188.76 α = 90
    b = 188.76 β = 90
    c = 188.76 γ = 90
     
    Space Group
    Space Group Name:    P 41 3 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2001-11-14
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 14-ID-B
    Wavelength List 1.0069
    Site APS
    Beamline 14-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Resolution(High) 2.54
    Resolution(Low) 84.42
    Number Reflections(All) 70833
    Number Reflections(Observed) 70394
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.09
    B(Isotropic) From Wilson Plot 53.5
    Redundancy 33.0
     
    High Resolution Shell Details
    Resolution(High) 2.55
    Resolution(Low) 2.64
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.33
    Mean I Over Sigma(Observed) 20.0
    Number Unique Reflections(All) 3710
     
     
  •   Refinement Hide
    Refinement Statistics
    reflnsShellList 2.55
    Resolution(Low) 84.42
    Number of Reflections(all) 70831
    Number of Reflections(Observed) 70394
    Number of Reflections(R-Free) 2805
    Percent Reflections(Observed) 99.4
    R-Work 0.269
    R-Free 0.309
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 30.79
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.55
    Shell Resolution(Low) 2.67
    Number of Reflections(Observed) 8623
    Number of Reflections(R-Free) 305
    Number of Reflections(R-Work) 8318
    R-Factor(R-Work) 0.422
    R-Factor(R-Free) 0.411
    R-Free Error 0.024
    Percent Reflections(Observed) 97.3
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.67
    Shell Resolution(Low) 2.81
    Number of Reflections(Observed) 8755
    Number of Reflections(R-Free) 355
    Number of Reflections(R-Work) 8400
    R-Factor(R-Work) 0.355
    R-Factor(R-Free) 0.349
    R-Free Error 0.019
    Percent Reflections(Observed) 98.9
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.81
    Shell Resolution(Low) 2.98
    Number of Reflections(Observed) 8822
    Number of Reflections(R-Free) 333
    Number of Reflections(R-Work) 8489
    R-Factor(R-Work) 0.316
    R-Factor(R-Free) 0.316
    R-Free Error 0.017
    Percent Reflections(Observed) 99.5
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.98
    Shell Resolution(Low) 3.21
    Number of Reflections(Observed) 8805
    Number of Reflections(R-Free) 392
    Number of Reflections(R-Work) 8413
    R-Factor(R-Work) 0.287
    R-Factor(R-Free) 0.292
    R-Free Error 0.015
    Percent Reflections(Observed) 99.5
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.21
    Shell Resolution(Low) 3.54
    Number of Reflections(Observed) 8869
    Number of Reflections(R-Free) 342
    Number of Reflections(R-Work) 8527
    R-Factor(R-Work) 0.278
    R-Factor(R-Free) 0.284
    R-Free Error 0.015
    Percent Reflections(Observed) 99.9
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.54
    Shell Resolution(Low) 4.05
    Number of Reflections(Observed) 8824
    Number of Reflections(R-Free) 361
    Number of Reflections(R-Work) 8463
    R-Factor(R-Work) 0.23
    R-Factor(R-Free) 0.235
    R-Free Error 0.012
    Percent Reflections(Observed) 99.6
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.05
    Shell Resolution(Low) 5.1
    Number of Reflections(Observed) 8877
    Number of Reflections(R-Free) 366
    Number of Reflections(R-Work) 8511
    R-Factor(R-Work) 0.206
    R-Factor(R-Free) 0.208
    R-Free Error 0.011
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.1
    Shell Resolution(Low) 84.42
    Number of Reflections(Observed) 8819
    Number of Reflections(R-Free) 351
    Number of Reflections(R-Work) 8468
    R-Factor(R-Work) 0.259
    R-Factor(R-Free) 0.258
    R-Free Error 0.014
    Percent Reflections(Observed) 99.5
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.81
    c_dihedral_angle_d 25.6
    c_angle_deg 1.3
    c_bond_d 0.007
     
    Coordinate Error
    Luzzati ESD(Observed) 0.39
    Luzzati Sigma A(Observed) 0.52
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.48
    Luzzati Sigma A(R-Free Set) 0.56
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6464
    Nucleic Acid Atoms 0
    Heterogen Atoms 442
    Solvent Atoms 50
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution SOLVE
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building SOLVE
    data reduction SCALEPACK
    data collection DENZO