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X-RAY DIFFRACTION
Materials and Methods page
4FDB
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.5
    Temperature 277.0
    Details Protein solution: 100mM NaCl, 5mM DTT, 0.02% NaN3, 10mM Tris-HCl, pH 7.5. Reservoir solution: 5.76M K-ACETATE 0.1M NA3-CITRATE, UNDER OIL BATCH, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 70.66 α = 90
    b = 70.66 β = 90
    c = 141.12 γ = 90
     
    Space Group
    Space Group Name:    I 41 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MAR CCD 165 mm
    Collection Date 2012-04-11
     
    Diffraction Radiation
    Monochromator Si 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X4C
    Wavelength List 0.979
    Site NSLS
    Beamline X4C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.8
    Resolution(Low) 50
    Number Reflections(Observed) 31660
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.095
    Redundancy 26.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 40.776
    Cut-off Sigma(F) 1.34
    Number of Reflections(Observed) 16694
    Number of Reflections(R-Free) 845
    Percent Reflections(Observed) 98.23
    R-Factor(Observed) 0.1968
    R-Work 0.1957
    R-Free 0.2175
     
    Temperature Factor Modeling
    Mean Isotropic B Value 28.242
    Anisotropic B[1][1] 3.661
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.661
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -7.323
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8002
    Shell Resolution(Low) 1.913
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 2429
    R-Factor(R-Work) 0.2206
    R-Factor(R-Free) 0.2273
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.913
    Shell Resolution(Low) 2.0607
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 2604
    R-Factor(R-Work) 0.1828
    R-Factor(R-Free) 0.1993
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0607
    Shell Resolution(Low) 2.268
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2625
    R-Factor(R-Work) 0.1788
    R-Factor(R-Free) 0.2295
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.268
    Shell Resolution(Low) 2.5962
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2644
    R-Factor(R-Work) 0.201
    R-Factor(R-Free) 0.2285
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5962
    Shell Resolution(Low) 3.2707
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2713
    R-Factor(R-Work) 0.2003
    R-Factor(R-Free) 0.2302
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2707
    Shell Resolution(Low) 40.7868
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2834
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.206
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.082
    f_dihedral_angle_d 14.567
    f_angle_d 1.167
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 723
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 89
     
     
  •   Software and Computing Hide
    Computing
    Structure Refinement PHENIX (phenix.refine: dev_1269)
     
    Software
    data extraction pdb_extract version: 3.100
    refinement phenix