POP-OUT | CLOSE

An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3MKY
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 298.0
    Details 1.3 M ammonium sulphate, 0.1 M Tris pH 8.5 , 25% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 200.78 α = 90
    b = 200.78 β = 90
    c = 200.78 γ = 90
     
    Space Group
    Space Group Name:    I 2 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Details mirrors
    Collection Date 2008-10-12
     
    Diffraction Radiation
    Monochromator gaphite
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.3.1
    Wavelength List 0.98
    Site ALS
    Beamline 8.3.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.86
    Resolution(Low) 141
    Number Reflections(All) 30600
    Number Reflections(Observed) 30569
    Percent Possible(Observed) 99.0
    R Merge I(Observed) 0.044
    B(Isotropic) From Wilson Plot 104.5
    Redundancy 5.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 2.86
    Resolution(Low) 63.49
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 30569
    Number of Reflections(Observed) 30569
    Number of Reflections(R-Free) 3067
    Percent Reflections(Observed) 98.0
    R-Factor(All) 0.242
    R-Factor(Observed) 0.242
    R-Work 0.242
    R-Free 0.266
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 71.5
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.86
    Shell Resolution(Low) 3.04
    Number of Reflections(R-Free) 452
    Number of Reflections(R-Work) 4346
    R-Factor(R-Work) 0.516
    R-Factor(R-Free) 0.518
    R-Free Error 0.024
    Percent Reflections(Observed) 93.5
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 4.95
    c_scbond_it 3.11
    c_mcangle_it 2.67
    c_mcbond_it 1.51
    c_improper_angle_d 1.07
    c_dihedral_angle_d 17.8
    c_angle_deg 1.2
    c_bond_d 0.006
     
    Coordinate Error
    Luzzati ESD(Observed) 0.5
    Luzzati Sigma A(Observed) 0.63
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.54
    Luzzati Sigma A(R-Free Set) 0.64
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1749
    Nucleic Acid Atoms 732
    Heterogen Atoms 50
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution SOLVE
    Structure Refinement CNS 1.2
     
    Software
    refinement CNS version: 1.2
    model building SOLVE
    data collection ADSC version: Quantum