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X-RAY DIFFRACTION
Materials and Methods page
4IBV
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.1
    Temperature 293.0
    Details 1:2.4 PROTEIN/DNA RATIO, 16% PEG 3350, 0.18M NH4F, pH 6.1, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 137.63 α = 90
    b = 50.3 β = 93.46
    c = 34.01 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 CCD
    Type MARMOSAIC 225 mm CCD
    Details Pt coated Si mirror in Kirkpatrick-Baez geometry
    Collection Date 2009-02-17
     
    Diffraction Radiation
    Monochromator SILICON (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID23-2
    Wavelength List 0.8726
    Site ESRF
    Beamline ID23-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.1
    Resolution(Low) 50
    Number Reflections(Observed) 13264
    Percent Possible(Observed) 96.6
    R Merge I(Observed) 0.082
    Redundancy 6.2
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.14
    Percent Possible(All) 83.6
    R Merge I(Observed) 0.255
    Redundancy 3.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.1
    Resolution(Low) 47.235
    Cut-off Sigma(F) 1.34
    Number of Reflections(all) 13262
    Number of Reflections(Observed) 13262
    Number of Reflections(R-Free) 667
    Percent Reflections(Observed) 96.25
    R-Factor(Observed) 0.1648
    R-Work 0.1614
    R-Free 0.2294
     
    Temperature Factor Modeling
    Mean Isotropic B Value 28.025
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.258
    Number of Reflections(R-Free) 101
    Number of Reflections(R-Work) 2293
    R-Factor(R-Work) 0.1808
    R-Factor(R-Free) 0.2416
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.258
    Shell Resolution(Low) 2.4852
    Number of Reflections(R-Free) 156
    Number of Reflections(R-Work) 2460
    R-Factor(R-Work) 0.1786
    R-Factor(R-Free) 0.2581
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4852
    Shell Resolution(Low) 2.8448
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2581
    R-Factor(R-Work) 0.1839
    R-Factor(R-Free) 0.2552
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8448
    Shell Resolution(Low) 3.5839
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2591
    R-Factor(R-Work) 0.1604
    R-Factor(R-Free) 0.2253
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5839
    Shell Resolution(Low) 47.2472
    Number of Reflections(R-Free) 129
    Number of Reflections(R-Work) 2670
    R-Factor(R-Work) 0.1415
    R-Factor(R-Free) 0.2031
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.006
    f_chiral_restr 0.078
    f_dihedral_angle_d 18.445
    f_angle_d 1.21
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1535
    Nucleic Acid Atoms 221
    Heterogen Atoms 29
    Solvent Atoms 164
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement PHENIX (phenix.refine: dev_1405)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    molecular replacement Phaser
    data reduction HKL