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X-RAY DIFFRACTION
Materials and Methods page
4EC6
  •   Crystallization Hide
    Crystallization Experiments
    Method microbatch under oil
    pH 7.33
    Temperature 298.0
    Details 1 mg/ml protein, 16.5% PEG 3350 (final concentration in drop v/v), 0.1 M Hepes, pH 7.33, microbatch under oil, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 39.21 α = 89.91
    b = 54.98 β = 86.44
    c = 93.47 γ = 78.63
     
    Space Group
    Space Group Name:    P 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Details toroidal mirror (M2) to vertically and horizontally focus the beam at the sample position (with 2:1 horizontal demagnification)
    Collection Date 2011-05-29
     
    Diffraction Radiation
    Monochromator BARTELS MONOCROMATOR
    Diffraction Protocol SAD
     
    Diffraction Source
    Source Synchrotron
    Type SLS BEAMLINE X06DA
    Wavelength List 0.9792
    Site SLS
    Beamline X06DA
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.5
    Resolution(Low) 50
    Number Reflections(All) 52900
    Number Reflections(Observed) 25885
    Percent Possible(Observed) 97.5
    R Merge I(Observed) 0.116
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.6
    Percent Possible(All) 97.7
    R Merge I(Observed) 0.48
    Mean I Over Sigma(Observed) 4.05
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.5
    Resolution(Low) 46.89
    Number of Reflections(all) 52900
    Number of Reflections(Observed) 24589
    Number of Reflections(R-Free) 1295
    Percent Reflections(Observed) 97.87
    R-Factor(Observed) 0.2118
    R-Work 0.20921
    R-Free 0.26109
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 28.803
    Anisotropic B[1][1] 2.04
    Anisotropic B[1][2] -0.92
    Anisotropic B[1][3] 0.8
    Anisotropic B[2][2] -0.52
    Anisotropic B[2][3] -0.04
    Anisotropic B[3][3] -1.26
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.565
    Number of Reflections(R-Free) 96
    Number of Reflections(R-Work) 1816
    R-Factor(R-Work) 0.265
    R-Factor(R-Free) 0.35
    Percent Reflections(Observed) 97.9
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.007
    r_chiral_restr 0.12
    r_dihedral_angle_4_deg 15.12
    r_dihedral_angle_3_deg 19.855
    r_dihedral_angle_2_deg 38.369
    r_dihedral_angle_1_deg 7.139
    r_angle_refined_deg 1.762
    r_bond_refined_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5412
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 399
     
     
  •   Software and Computing Hide
    Computing
    Data Collection XDS
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution SOLVE
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    density modification RESOLVE version: 2.15
    phasing SOLVE version: 2.13
    data reduction Xscale