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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1KX5
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6
    Temperature 293.0
    Details manganese chloride, potassium chloride, potassium cacodylate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 105.95 α = 90
    b = 181.17 β = 90
    c = 109.49 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 103
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MARRESEARCH
    Collection Date 1999-05-18
     
    Diffraction Radiation
    Monochromator Si 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength List 0.93
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.94
    Resolution(Low) 20
    Number Reflections(All) 158096
    Number Reflections(Observed) 151140
    Percent Possible(Observed) 95.6
    R Merge I(Observed) 0.072
    B(Isotropic) From Wilson Plot 35.1
    Redundancy 5.1
     
    High Resolution Shell Details
    Resolution(High) 1.94
    Resolution(Low) 2.01
    Percent Possible(All) 88.0
    R Merge I(Observed) 0.291
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.94
    Resolution(Low) 6.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 143936
    Number of Reflections(Observed) 143936
    Number of Reflections(R-Free) 2898
    Percent Reflections(Observed) 95.6
    R-Factor(All) 0.209
    R-Factor(Observed) 0.209
    R-Work 0.208
    R-Free 0.275
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 51.5
    Anisotropic B[1][1] 2.61
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.3
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -5.91
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.94
    Shell Resolution(Low) 2.06
    Number of Reflections(R-Free) 452
    Number of Reflections(R-Work) 21475
    R-Factor(R-Work) 0.315
    R-Factor(R-Free) 0.351
    R-Free Error 0.016
    Percent Reflections(Observed) 88.1
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.81
    c_scbond_it 2.73
    c_mcangle_it 2.84
    c_mcbond_it 2.12
    c_improper_angle_d 1.22
    c_dihedral_angle_d 19.2
    c_angle_deg 1.2
    c_bond_d 0.009
     
    Coordinate Error
    Luzzati ESD(Observed) 0.23
    Luzzati Sigma A(Observed) 0.18
    Luzzati Resolution Cutoff(Low) 6.0
    Luzzati ESD(R-Free Set) 0.3
    Luzzati Sigma A(R-Free Set) 0.16
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7586
    Nucleic Acid Atoms 6021
    Heterogen Atoms 18
    Solvent Atoms 3130
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS 0.5
     
    Software
    refinement CNS version: 0.5
    model building CNS
    data reduction SCALEPACK
    data collection DENZO