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X-RAY DIFFRACTION
Materials and Methods page
4IWR
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 4
    Temperature 289.0
    Details 0.1 M PCB buffer, 20 % v/v PEG 1500, 10 mM spermidine , pH 4, VAPOR DIFFUSION, HANGING DROP, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.02 α = 90
    b = 48.02 β = 90
    c = 218.35 γ = 120
     
    Space Group
    Space Group Name:    P 32
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2008-11-06
     
    Diffraction Radiation
    Monochromator Si(111) double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength List 0.933000
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.4
    Resolution(Low) 38.86
    Number Reflections(Observed) 21045
    Percent Possible(Observed) 95.6
    R Merge I(Observed) 0.048
    B(Isotropic) From Wilson Plot 59.528
     
    High Resolution Shell Details
    Resolution(High) 2.4
    Resolution(Low) 2.5
    Percent Possible(All) 85.4
    R Merge I(Observed) 0.542
    Mean I Over Sigma(Observed) 1.46
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.4
    Resolution(Low) 38.86
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 21045
    Number of Reflections(Observed) 21041
    Number of Reflections(R-Free) 1069
    Percent Reflections(Observed) 95.8
    R-Factor(Observed) 0.2002
    R-Work 0.1972
    R-Free 0.2599
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 67.385
    Anisotropic B[1][1] 0.42
    Anisotropic B[1][2] 0.42
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.42
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.37
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4
    Shell Resolution(Low) 2.462
    Number of Reflections(R-Free) 62
    Number of Reflections(R-Work) 1211
    R-Factor(R-Work) 0.292
    R-Factor(R-Free) 0.374
    Percent Reflections(Observed) 82.45
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.008
    r_chiral_restr 0.092
    r_dihedral_angle_4_deg 19.325
    r_dihedral_angle_3_deg 18.365
    r_dihedral_angle_2_deg 36.805
    r_dihedral_angle_1_deg 5.816
    r_angle_other_deg 1.168
    r_angle_refined_deg 1.522
    r_bond_other_d 0.002
    r_bond_refined_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2458
    Nucleic Acid Atoms 2050
    Heterogen Atoms 0
    Solvent Atoms 23
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) XSCALE
    Data Reduction (data scaling) XSCALE
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement Phaser version: 2.5.1
    data reduction Xscale