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X-RAY DIFFRACTION
Materials and Methods page
4JRL
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 9
    Temperature 277.0
    Details 0.1M bicine pH 9, 2.4M ammonium sulfate, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 133.88 α = 90
    b = 133.88 β = 90
    c = 127.5 γ = 120
     
    Space Group
    Space Group Name:    H 3 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL
    Type DECTRIS PILATUS 6M
    Details Flat mirror (vertical focusing); single crystal Si(111) bent monochromator (horizontal focusing)
    Collection Date 2013-01-24
     
    Diffraction Radiation
    Monochromator single crystal Si(111) bent
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.91837,0.97932
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.1
    Resolution(Low) 28.71
    Number Reflections(Observed) 25691
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.106
    B(Isotropic) From Wilson Plot 33.623
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.17
    Percent Possible(All) 99.0
    R Merge I(Observed) 0.862
    Mean I Over Sigma(Observed) 1.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 2.1
    Resolution(Low) 28.711
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 25691
    Number of Reflections(R-Free) 1307
    Percent Reflections(Observed) 99.73
    R-Factor(Observed) 0.1731
    R-Work 0.1707
    R-Free 0.2202
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 41.5498
    Anisotropic B[1][1] 0.65
    Anisotropic B[1][2] 0.65
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.65
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.1
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.155
    Number of Reflections(R-Free) 86
    Number of Reflections(R-Work) 1789
    R-Factor(R-Work) 0.233
    R-Factor(R-Free) 0.289
    Percent Reflections(Observed) 99.26
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_mcangle_it 5.07
    r_mcbond_other 3.924
    r_bond_refined_d 0.011
    r_bond_other_d 0.001
    r_angle_refined_deg 1.782
    r_angle_other_deg 0.803
    r_dihedral_angle_1_deg 3.099
    r_dihedral_angle_2_deg 31.971
    r_dihedral_angle_3_deg 10.337
    r_dihedral_angle_4_deg 10.66
    r_chiral_restr 0.106
    r_gen_planes_refined 0.006
    r_gen_planes_other 0.001
    r_mcbond_it 3.93
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2717
    Nucleic Acid Atoms 0
    Heterogen Atoms 31
    Solvent Atoms 166
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution SHELXD/AUTOSHARP
    Structure Refinement REFMAC 5.7.0032
     
    Software
    refinement REFMAC5 version: 5.7.0032
    data processing Xscale version: July 4, 2012
    phasing SHARP
    phasing SHELX
    data extraction pdb_extract version: 3.10
    validation MOLPROBITY version: 3beta29