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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DAQ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 285.0
    Details 15% PEG400, 150 mM sodium chloride and 50 mM sodium cacodylate (pH 6.5), VAPOR DIFFUSION, HANGING DROP, temperature 285K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 50.51 α = 90
    b = 50.51 β = 90
    c = 51.72 γ = 120
     
    Space Group
    Space Group Name:    P 31 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2011-12-16
     
    Diffraction Radiation
    Monochromator Si 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type DIAMOND BEAMLINE I04
    Wavelength List 0.9795
    Site DIAMOND
    Beamline I04
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.69
    Resolution(Low) 25.86
    Number Reflections(All) 2284
    Number Reflections(Observed) 2284
    Percent Possible(Observed) 99.2
    R Merge I(Observed) 0.047
    B(Isotropic) From Wilson Plot 91.91
    Redundancy 7.3
     
    High Resolution Shell Details
    Resolution(High) 2.69
    Resolution(Low) 2.76
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.613
    Mean I Over Sigma(Observed) 2.9
    Redundancy 7.7
    Number Unique Reflections(All) 168
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.754
    Resolution(Low) 22.69
    Number of Reflections(all) 1995
    Number of Reflections(Observed) 1995
    Number of Reflections(R-Free) 123
    Percent Reflections(Observed) 99.02
    R-Factor(Observed) 0.21555
    R-Work 0.21172
    R-Free 0.27531
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 51.95
    Anisotropic B[1][1] -0.02
    Anisotropic B[1][2] -0.01
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.02
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.03
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.754
    Shell Resolution(Low) 2.825
    Number of Reflections(R-Free) 3
    Number of Reflections(R-Work) 132
    R-Factor(R-Work) 0.465
    R-Factor(R-Free) 0.419
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.008
    r_chiral_restr 0.061
    r_angle_refined_deg 1.588
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 444
    Heterogen Atoms 65
    Solvent Atoms 8
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) XIA2
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER
    data collection DNA