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X-RAY DIFFRACTION
Materials and Methods page
3UYB
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 298.0
    Details 10%(v/v) 2-methyl-2,4-pentanediol, 40mM sodium cacodylate, 12mM spermine tetra-HCl, 80mM sodium chloride, 20mM barium chloride, 1mM DNA d(TCGGTACCGA), 1mM lambda-[Ru(tap)2dppz)Cl2 , pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 54.38 α = 90
    b = 54.38 β = 90
    c = 29 γ = 90
     
    Space Group
    Space Group Name:    P 43 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type PSI PILATUS 6M
    Collection Date 2011-06-12
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID29
    Wavelength List 0.98400
    Site ESRF
    Beamline ID29
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.7
    Observed Criterion Sigma(I) 1.7
    Resolution(High) 1.5
    Resolution(Low) 38.45
    Number Reflections(Observed) 7382
    Percent Possible(Observed) 99.9
     
    High Resolution Shell Details
    Resolution(High) 1.5
    Resolution(Low) 1.58
    Percent Possible(All) 100.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.5
    Resolution(Low) 38.45
    Cut-off Sigma(F) 1.7
    Number of Reflections(Observed) 6591
    Number of Reflections(R-Free) 316
    Percent Reflections(Observed) 93.76
    R-Factor(Observed) 0.12859
    R-Work 0.1267
    R-Free 0.16672
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 19.742
    Anisotropic B[1][1] -0.06
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.06
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.11
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5
    Shell Resolution(Low) 1.539
    Number of Reflections(R-Free) 13
    Number of Reflections(R-Work) 365
    R-Factor(R-Work) 0.136
    R-Factor(R-Free) 0.261
    Percent Reflections(Observed) 79.41
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 13.777
    r_sphericity_free 25.876
    r_rigid_bond_restr 9.612
    r_gen_planes_refined 0.038
    r_chiral_restr 0.084
    r_angle_refined_deg 3.537
    r_bond_refined_d 0.034
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 202
    Heterogen Atoms 103
    Solvent Atoms 66
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MXCuBE
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution shelx_cde
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building shelx_cde
    data collection MXCuBE