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An Information Portal to 109093 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1ZX4
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details sodium citrate, imidazole, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 154.6 α = 90
    b = 154.6 β = 90
    c = 132.3 γ = 120
     
    Space Group
    Space Group Name:    P 62 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Details mirrors
    Collection Date 2005-03-23
     
    Diffraction Radiation
    Monochromator graphite
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.2.2
    Wavelength List 1.006
    Site ALS
    Beamline 8.2.2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.98
    Resolution(Low) 65.9
    Number Reflections(All) 19627
    Number Reflections(Observed) 18057
    Percent Possible(Observed) 92.0
    R Merge I(Observed) 0.092
    B(Isotropic) From Wilson Plot 98.0
    Redundancy 3.0
     
    High Resolution Shell Details
    Resolution(High) 2.98
    Resolution(Low) 3.15
    Percent Possible(All) 92.0
    R Merge I(Observed) 0.43
    Mean I Over Sigma(Observed) 1.8
    R-Sym I(Observed) 0.44
    Redundancy 2.3
    Number Unique Reflections(All) 3000
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 2.98
    Resolution(Low) 50.61
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 18057
    Number of Reflections(Observed) 18001
    Number of Reflections(R-Free) 2086
    Percent Reflections(Observed) 94.4
    R-Factor(All) 0.2481
    R-Factor(Observed) 0.2481
    R-Work 0.248
    R-Free 0.296
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 89.1
    Anisotropic B[1][1] 4.3
    Anisotropic B[1][2] 3.57
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 4.3
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -8.6
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.98
    Shell Resolution(Low) 3.15
    Number of Reflections(R-Free) 274
    Number of Reflections(R-Work) 1902
    R-Factor(R-Work) 0.284
    R-Factor(R-Free) 0.325
    R-Free Error 0.02
    Percent Reflections(Observed) 73.9
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 8.14
    c_scbond_it 5.2
    c_mcangle_it 4.65
    c_mcbond_it 2.78
    c_improper_angle_d 1.27
    c_dihedral_angle_d 21.3
    c_angle_deg 1.6
    c_bond_d 0.011
     
    Coordinate Error
    Luzzati ESD(Observed) 0.39
    Luzzati Sigma A(Observed) 0.36
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.48
    Luzzati Sigma A(R-Free Set) 0.23
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2842
    Nucleic Acid Atoms 1019
    Heterogen Atoms 26
    Solvent Atoms 7
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) CCP4 (SCALA)
    Structure Solution SOLVE
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building SOLVE
    data reduction SCALA
    data collection MOSFLM