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X-RAY DIFFRACTION
Materials and Methods page
4GOC
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 298.0
    Details 2.4 M sodium malonate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 49.36 α = 90
    b = 63.62 β = 90
    c = 71.58 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL
    Type PSI PILATUS 6M
    Collection Date 2012-02-26
     
    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) 2.4
    Resolution(Low) 29.07
    Number Reflections(Observed) 9092
    Percent Possible(Observed) 98.2
    R Merge I(Observed) 0.133
    Redundancy 3.3
     
    High Resolution Shell Details
    Resolution(High) 2.4
    Resolution(Low) 2.46
    Percent Possible(All) 98.7
    R Merge I(Observed) 0.613
    Mean I Over Sigma(Observed) 1.8
    Redundancy 3.3
    Number Unique Reflections(All) 666
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.4
    Resolution(Low) 29.069
    Cut-off Sigma(F) 2.03
    Number of Reflections(Observed) 9084
    Number of Reflections(R-Free) 907
    Percent Reflections(Observed) 98.15
    R-Factor(Observed) 0.1809
    R-Work 0.1737
    R-Free 0.2453
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Data Not Available
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4001
    Shell Resolution(Low) 2.5504
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 1340
    R-Factor(R-Work) 0.2481
    R-Factor(R-Free) 0.3505
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5504
    Shell Resolution(Low) 2.7472
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 1340
    R-Factor(R-Work) 0.2374
    R-Factor(R-Free) 0.2998
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7472
    Shell Resolution(Low) 3.0234
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1337
    R-Factor(R-Work) 0.2152
    R-Factor(R-Free) 0.3053
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0234
    Shell Resolution(Low) 3.4602
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 1357
    R-Factor(R-Work) 0.1704
    R-Factor(R-Free) 0.3106
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4602
    Shell Resolution(Low) 4.3572
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 1372
    R-Factor(R-Work) 0.1286
    R-Factor(R-Free) 0.1797
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.3572
    Shell Resolution(Low) 29.071
    Number of Reflections(R-Free) 159
    Number of Reflections(R-Work) 1431
    R-Factor(R-Work) 0.1571
    R-Factor(R-Free) 0.1929
    Percent Reflections(Observed) 97.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.07
    f_dihedral_angle_d 15.186
    f_angle_d 1.103
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1803
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 104
     
     
  •   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_1066)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8_1066)
    model building PHASER
    data collection BLU-ICE