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X-RAY DIFFRACTION
Materials and Methods page
4KRR
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 5.5
    Temperature 283.0
    Details 20% PEG 1000, 0.1M Bis-Tris, 0.2M magnesium chloride, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 283K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.62 α = 90
    b = 59.62 β = 90
    c = 66.96 γ = 90
     
    Space Group
    Space Group Name:    P 41
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL
    Type PSI PILATUS 6M
    Collection Date 2012-03-28
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.97945
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Resolution(High) 2.12
    Resolution(Low) 59.62
    Number Reflections(All) 13310
    Number Reflections(Observed) 13301
    Percent Possible(Observed) 99.9
    Redundancy 13.5
     
    High Resolution Shell Details
    Resolution(High) 2.124
    Resolution(Low) 2.24
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.016
    Mean I Over Sigma(Observed) 0.5
    R-Sym I(Observed) 1.583
    Redundancy 13.8
    Number Unique Reflections(All) 1915
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.124
    Resolution(Low) 29.812
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 13272
    Number of Reflections(R-Free) 654
    Percent Reflections(Observed) 99.74
    R-Factor(Observed) 0.1805
    R-Work 0.1793
    R-Free 0.2035
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 55.412
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.124
    Shell Resolution(Low) 2.288
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2503
    R-Factor(R-Work) 0.2469
    R-Factor(R-Free) 0.2725
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.288
    Shell Resolution(Low) 2.5181
    Number of Reflections(R-Free) 123
    Number of Reflections(R-Work) 2501
    R-Factor(R-Work) 0.214
    R-Factor(R-Free) 0.2539
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5181
    Shell Resolution(Low) 2.8822
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2513
    R-Factor(R-Work) 0.2027
    R-Factor(R-Free) 0.2705
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8822
    Shell Resolution(Low) 3.6303
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 2527
    R-Factor(R-Work) 0.1856
    R-Factor(R-Free) 0.2191
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.6303
    Shell Resolution(Low) 29.8154
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2574
    R-Factor(R-Work) 0.1579
    R-Factor(R-Free) 0.1639
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 12.422
    f_plane_restr 0.002
    f_chiral_restr 0.039
    f_angle_d 0.561
    f_bond_d 0.002
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1465
    Nucleic Acid Atoms 0
    Heterogen Atoms 25
    Solvent Atoms 72
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.8.2_1309)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    density modification CNS
    molecular replacement Phaser version: 2.3.0
    data reduction SCALA version: 3.3.16