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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1HR0
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 277.0
    Details 15% MPD, 25 mM magnesium Acetate, 200 mM KCl, 75 mM NH4Cl, 100 mM K-Cacodylate, pH 6.50. VAPOR DIFFUSION, HANGING DROP at 277 K Initiation factor 1 soaked into pre-formed crystals.
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 399.58 α = 90
    b = 399.58 β = 90
    c = 176.32 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2000-07-25
     
    Diffraction Radiation
    Monochromator Si 111
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength 0.93950
    Wavelength List 0.93
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 3.2
    Resolution(Low) 29.8
    Number Reflections(All) 227537
    Number Reflections(Observed) 854384
    Percent Possible(Observed) 96.2
    R Merge I(Observed) 0.14
    B(Isotropic) From Wilson Plot 75.7
    Redundancy 3.75
     
    High Resolution Shell Details
    Resolution(High) 3.2
    Resolution(Low) 3.31
    Percent Possible(All) 92.2
    R Merge I(Observed) 0.499
    Mean I Over Sigma(Observed) 1.92
    Redundancy 3.12
    Number Unique Reflections(All) 21572
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method Difference Fourier using 30S as starting model
    reflnsShellList 3.2
    Resolution(Low) 28.9
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 212803
    Number of Reflections(Observed) 212803
    Number of Reflections(R-Free) 10725
    Percent Reflections(Observed) 91.5
    R-Factor(All) 0.22
    R-Factor(Observed) 0.22
    R-Work 0.2178
    R-Free 0.2609
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 75.71
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2
    Shell Resolution(Low) 3.31
    Number of Reflections(R-Free) 972
    Number of Reflections(R-Work) 14376
    R-Factor(R-Work) 0.3073
    R-Factor(R-Free) 0.3412
    Percent Reflections(Observed) 80.3
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 1.54
    c_dihedral_angle_d 28.45
    c_angle_deg 1.247
    c_bond_d 0.0068
     
    Coordinate Error
    Luzzati ESD(Observed) 0.39
    Luzzati Sigma A(Observed) 0.54
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.46
    Luzzati Sigma A(R-Free Set) 0.56
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 19799
    Nucleic Acid Atoms 32499
    Heterogen Atoms 67
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS
     
    Software
    refinement CNS
    model building CNS
    data reduction SCALEPACK
    data collection HKL2000