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X-RAY DIFFRACTION
Materials and Methods page
4GKQ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 277.0
    Details 0.1M Tris, 12% PEG8000, 0.05M MgCl2, 0.15M NaCl, 5% Ethylene glycol, 1mM TCEP, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 197 α = 90
    b = 197 β = 90
    c = 50.18 γ = 120
     
    Space Group
    Space Group Name:    H 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2010-07-15
     
    Diffraction Radiation
    Monochromator Double crystal cryo-cooled Si (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-B
    Wavelength List 1.033
    Site APS
    Beamline 23-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.99
    Resolution(Low) 20
    Number Reflections(All) 14671
    Number Reflections(Observed) 14501
    Percent Possible(Observed) 98.8
    R Merge I(Observed) 0.088
    B(Isotropic) From Wilson Plot 103.571
    Redundancy 5.8
     
    High Resolution Shell Details
    Resolution(High) 2.99
    Resolution(Low) 3.07
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.928
    Mean I Over Sigma(Observed) 2.13
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.99
    Resolution(Low) 19.8
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 14671
    Number of Reflections(Observed) 14499
    Number of Reflections(R-Free) 1444
    Percent Reflections(Observed) 98.83
    R-Factor(All) 0.2182
    R-Factor(Observed) 0.2182
    R-Work 0.2137
    R-Free 0.2594
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 113.981
    Anisotropic B[1][1] -2.21
    Anisotropic B[1][2] -1.11
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -2.21
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 3.32
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.99
    Shell Resolution(Low) 3.066
    Number of Reflections(R-Free) 106
    Number of Reflections(R-Work) 938
    R-Factor(R-Work) 0.291
    R-Factor(R-Free) 0.375
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.004
    r_chiral_restr 0.074
    r_dihedral_angle_4_deg 9.986
    r_dihedral_angle_3_deg 18.176
    r_dihedral_angle_2_deg 35.737
    r_dihedral_angle_1_deg 5.874
    r_angle_refined_deg 1.16
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3323
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 1
     
     
  •   Software and Computing Hide
    Computing
    Data Collection JBlu-Ice
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution Phaser
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    data reduction Xscale