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X-RAY DIFFRACTION
Materials and Methods page
1MKY
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 10
    Temperature 298.0
    Details sodium phosphate, potassium phosphate, 3-(cyclohexylamino)-1-propane sulphonic acid (CAPS), pH 10.0, VAPOR DIFFUSION, HANGING DROP at 298K, temperature 298K, temperature 298.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 62.14 α = 90
    b = 77.99 β = 90
    c = 96.6 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2001-11-04
     
    Diffraction Radiation
    Monochromator crystal monochromator + Si mirrors
    Diffraction Protocol single wavelength with anomalous (SAD)
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X4A
    Wavelength List 0.9786
    Site NSLS
    Beamline X4A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.9
    Resolution(Low) 19.07
    Number Reflections(All) 71418
    Number Reflections(Observed) 69719
    Percent Possible(Observed) 99.6
    B(Isotropic) From Wilson Plot 21.0
    Redundancy 10.6
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.99
    Percent Possible(All) 93.1
    Mean I Over Sigma(Observed) 6.7
    R-Sym I(Observed) 0.361
    Redundancy 10.0
    Number Unique Reflections(All) 8929
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.9
    Resolution(Low) 19.07
    Cut-off Sigma(F) 2.0
    Number of Reflections(all) 71418
    Number of Reflections(Observed) 69719
    Number of Reflections(R-Free) 6899
    Percent Reflections(Observed) 10.0
    R-Factor(All) 0.208
    R-Factor(Observed) 0.204
    R-Work 0.204
    R-Free 0.224
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic
    Mean Isotropic B Value 30.39
    Anisotropic B[1][1] 6.3
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 1.99
    Number of Reflections(Observed) 8316
    Number of Reflections(R-Free) 821
    R-Factor(R-Work) 0.237
    R-Factor(R-Free) 0.266
    R-Free Error 0.009
    Percent Reflections(Observed) 93.1
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.99
    Shell Resolution(Low) 2.09
    Number of Reflections(Observed) 8625
    Number of Reflections(R-Free) 794
    R-Factor(R-Work) 0.217
    R-Factor(R-Free) 0.245
    R-Free Error 0.009
    Percent Reflections(Observed) 96.1
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.09
    Shell Resolution(Low) 2.22
    Number of Reflections(Observed) 8686
    Number of Reflections(R-Free) 871
    R-Factor(R-Work) 0.214
    R-Factor(R-Free) 0.253
    R-Free Error 0.009
    Percent Reflections(Observed) 97.1
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.22
    Shell Resolution(Low) 2.39
    Number of Reflections(Observed) 8750
    Number of Reflections(R-Free) 854
    R-Factor(R-Work) 0.21
    R-Factor(R-Free) 0.252
    R-Free Error 0.009
    Percent Reflections(Observed) 97.9
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.39
    Shell Resolution(Low) 2.63
    Number of Reflections(Observed) 8802
    Number of Reflections(R-Free) 882
    R-Factor(R-Work) 0.208
    R-Factor(R-Free) 0.257
    R-Free Error 0.009
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    x_improper_angle_d 0.86
    x_dihedral_angle_d 22.4
    x_angle_deg 1.5
    x_bond_d 0.007
     
    Coordinate Error
    Luzzati ESD(Observed) 0.21
    Luzzati Sigma A(Observed) 0.15
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.24
    Luzzati Sigma A(R-Free Set) 0.18
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3264
    Nucleic Acid Atoms 0
    Heterogen Atoms 53
    Solvent Atoms 246
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS
     
    Software
    refinement CNS
    model building CNS
    data reduction SCALEPACK
    data collection DENZO