POP-OUT | CLOSE

An Information Portal to 110790 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1GK4
  •   Crystallization Hide
    Crystallization Experiments
    pH 6.5
    Details 0.17M NA ACETATE, 25.5% PEG8000, 0.1M CACODYLATE, PH6.5, pH 6.50
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 76.59 α = 90
    b = 84.28 β = 90
    c = 240.79 γ = 90
     
    Space Group
    Space Group Name:    I 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Details MIRRORS
    Collection Date 1999-09-15
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE BM1A
    Wavelength 0.9
    Site ESRF
    Beamline BM1A
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.3
    Resolution(Low) 35
    Number Reflections(Observed) 34937
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.058
    B(Isotropic) From Wilson Plot 42.1
    Redundancy 4.5
     
    High Resolution Shell Details
    Resolution(High) 2.3
    Resolution(Low) 2.33
    Percent Possible(All) 99.7
    R Merge I(Observed) 0.405
    Mean I Over Sigma(Observed) 1.8
    Redundancy 4.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MIRAS
    reflnsShellList 2.3
    Resolution(Low) 34.52
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 34937
    Number of Reflections(R-Free) 1095
    Percent Reflections(Observed) 99.5
    R-Factor(Observed) 0.242
    R-Work 0.242
    R-Free 0.262
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 53.8
    Anisotropic B[1][1] 6.63
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 15.06
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -21.69
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3
    Shell Resolution(Low) 2.34
    Number of Reflections(R-Free) 53
    Number of Reflections(R-Work) 1663
    R-Factor(R-Work) 0.349
    R-Factor(R-Free) 0.313
    R-Free Error 0.043
    Percent Reflections(Observed) 99.8
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.72
    c_bond_d 0.008
    c_angle_deg 1.1
    c_dihedral_angle_d 16.7
     
    Coordinate Error
    Luzzati ESD(Observed) 0.34
    Luzzati Sigma A(Observed) 0.41
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.38
    Luzzati Sigma A(R-Free Set) 0.42
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3711
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 454
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution SHARP
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building SHARP