POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DC5
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details sodium potassium tartrate, 5% glycerol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.91 α = 90
    b = 57.91 β = 90
    c = 150.32 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 MARMOSAIC 300 mm CCD
    Details 20 micron minibeam aperture used
    Collection Date 2009-08-14
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-B
    Wavelength List 1.0332
    Site APS
    Beamline 23-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.48
    Resolution(Low) 50
    Number Reflections(All) 43152
    Number Reflections(Observed) 43152
    Percent Possible(Observed) 98.9
    B(Isotropic) From Wilson Plot 12.7
     
    High Resolution Shell Details
    Resolution(High) 1.48
    Resolution(Low) 1.52
    Percent Possible(All) 97.9
    R-Sym I(Observed) 0.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.48
    Resolution(Low) 37.89
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 42648
    Number of Reflections(Observed) 42648
    Number of Reflections(R-Free) 2152
    Percent Reflections(Observed) 97.7
    R-Factor(All) 0.176
    R-Factor(Observed) 0.175
    R-Work 0.175
    R-Free 0.191
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 13.3
    Anisotropic B[1][1] 0.74
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.74
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.48
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.48
    Shell Resolution(Low) 1.57
    Number of Reflections(Observed) 6672
    Number of Reflections(R-Free) 323
    Number of Reflections(R-Work) 6360
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.201
    R-Free Error 0.01
    Percent Reflections(Observed) 93.9
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 2.44
    c_scbond_it 1.68
    c_mcangle_it 1.44
    c_mcbond_it 0.9
    c_improper_angle_d 0.74
    c_dihedral_angle_d 25.5
    c_angle_deg 1.4
    c_bond_d 0.005
     
    Coordinate Error
    Luzzati ESD(Observed) 0.14
    Luzzati Sigma A(Observed) 0.04
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.15
    Luzzati Sigma A(R-Free Set) 0.04
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1545
    Nucleic Acid Atoms 0
    Heterogen Atoms 26
    Solvent Atoms 249
     
     
  •   Software and Computing Hide
    Computing
    Data Collection JBluIce
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution CNS
    Structure Refinement CNS 1.2
     
    Software
    refinement CNS version: 1.2
    model building CNS
    data collection JBluIce