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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4GOF
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 5
    Temperature 277.0
    Details 10% 2-propanol, 0.1 M sodium citrate, 26% PEG 400, 10 mM 2-mercaptoethanol, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 29.61 α = 90
    b = 43.61 β = 90
    c = 63.47 γ = 90
     
    Space Group
    Space Group Name:    P 2 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL
    Type PSI PILATUS 6M
    Collection Date 2012-02-09
     
    Diffraction Radiation
    Monochromator Liquid nitrogen-cooled double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL12-2
    Wavelength List 1.0000
    Site SSRL
    Beamline BL12-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.35
    Resolution(Low) 19.39
    Number Reflections(Observed) 18421
    Percent Possible(Observed) 98.9
    R Merge I(Observed) 0.058
    Redundancy 3.9
     
    High Resolution Shell Details
    Resolution(High) 1.35
    Resolution(Low) 1.37
    Percent Possible(All) 99.6
    R Merge I(Observed) 0.692
    Mean I Over Sigma(Observed) 1.7
    Redundancy 3.6
    Number Unique Reflections(All) 876
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.35
    Resolution(Low) 19.39
    Cut-off Sigma(F) 1.77
    Number of Reflections(Observed) 18388
    Number of Reflections(R-Free) 1090
    Percent Reflections(Observed) 98.48
    R-Factor(Observed) 0.1817
    R-Work 0.1806
    R-Free 0.1984
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Data Not Available
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.35
    Shell Resolution(Low) 1.4114
    Number of Reflections(R-Free) 123
    Number of Reflections(R-Work) 2144
    R-Factor(R-Work) 0.2655
    R-Factor(R-Free) 0.2785
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4114
    Shell Resolution(Low) 1.4858
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2119
    R-Factor(R-Work) 0.2145
    R-Factor(R-Free) 0.2469
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4858
    Shell Resolution(Low) 1.5789
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2134
    R-Factor(R-Work) 0.1927
    R-Factor(R-Free) 0.2394
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5789
    Shell Resolution(Low) 1.7007
    Number of Reflections(R-Free) 156
    Number of Reflections(R-Work) 2137
    R-Factor(R-Work) 0.1806
    R-Factor(R-Free) 0.1935
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7007
    Shell Resolution(Low) 1.8717
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 2166
    R-Factor(R-Work) 0.1793
    R-Factor(R-Free) 0.1847
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8717
    Shell Resolution(Low) 2.1423
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2175
    R-Factor(R-Work) 0.1579
    R-Factor(R-Free) 0.1952
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1423
    Shell Resolution(Low) 2.6979
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2194
    R-Factor(R-Work) 0.1718
    R-Factor(R-Free) 0.2047
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6979
    Shell Resolution(Low) 19.3924
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2229
    R-Factor(R-Work) 0.1801
    R-Factor(R-Free) 0.1791
    Percent Reflections(Observed) 95.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.003
    f_chiral_restr 0.066
    f_dihedral_angle_d 18.699
    f_angle_d 1.039
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 803
    Nucleic Acid Atoms 0
    Heterogen Atoms 9
    Solvent Atoms 81
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.8_1069)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8_1069)
    model building PHASER
    data collection BLU-ICE