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X-RAY DIFFRACTION
Materials and Methods page
2YPF
  •   Crystallization Hide
    Crystallization Experiments
    Details 0.1M MES PH=6.5, 5-15% PEG3350, 5-15% 2-PROPANOL
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 151.11 α = 90
    b = 100.25 β = 102.55
    c = 61.37 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL (PILATUS 6M)
    Type DECTRIS
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06SA
    Wavelength 1.0
    Site SLS
    Beamline X06SA
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.3
    Resolution(High) 2.55
    Resolution(Low) 32.29
    Number Reflections(Observed) 25764
    Percent Possible(Observed) 93.0
    R Merge I(Observed) 0.04
    Redundancy 2.2
     
    High Resolution Shell Details
    Resolution(High) 2.55
    Resolution(Low) 2.62
    Percent Possible(All) 95.1
    R Merge I(Observed) 0.62
    Mean I Over Sigma(Observed) 1.31
    Redundancy 2.07
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.55
    Resolution(Low) 32.29
    Number of Reflections(Observed) 25764
    Number of Reflections(R-Free) 1373
    Percent Reflections(Observed) 93.27
    R-Factor(Observed) 0.23857
    R-Work 0.23578
    R-Free 0.28983
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 72.161
    Anisotropic B[1][1] 0.72
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.08
    Anisotropic B[2][2] -1.27
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.51
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.553
    Shell Resolution(Low) 2.619
    Number of Reflections(R-Free) 100
    Number of Reflections(R-Work) 1896
    R-Factor(R-Work) 0.284
    R-Factor(R-Free) 0.331
    Percent Reflections(Observed) 93.97
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.011
    r_chiral_restr 0.112
    r_dihedral_angle_4_deg 22.616
    r_dihedral_angle_3_deg 21.737
    r_dihedral_angle_2_deg 44.084
    r_dihedral_angle_1_deg 7.588
    r_angle_refined_deg 1.897
    r_bond_refined_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4772
    Nucleic Acid Atoms 875
    Heterogen Atoms 0
    Solvent Atoms 175
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    refinement REFMAC version: 5.7.0029
    model building PHASER