POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4I4Y
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 293.0
    Details 0.1 M Tris-HCl, 0.2 M magnesium chloride, 25% PEG4000, 0.2 M 1-butyl-3-methylimidazolium chloride, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 66.39 α = 90
    b = 70.11 β = 106.67
    c = 71.52 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 210
    Collection Date 2011-11-25
     
    Diffraction Radiation
    Monochromator Diamond(001)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-1
    Wavelength List 0.93340
    Site ESRF
    Beamline ID14-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.9
    Resolution(Low) 30
    Number Reflections(All) 48087
    Number Reflections(Observed) 48087
    Percent Possible(Observed) 97.1
    R Merge I(Observed) 0.07
    B(Isotropic) From Wilson Plot 19.1
    Redundancy 3.1
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.95
    Percent Possible(All) 96.1
    Mean I Over Sigma(Observed) 0.35
    Redundancy 3.2
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 25.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 45649
    Number of Reflections(Observed) 45649
    Number of Reflections(R-Free) 2421
    Percent Reflections(Observed) 96.79
    R-Factor(All) 0.1924
    R-Factor(Observed) 0.1924
    R-Work 0.19065
    R-Free 0.22541
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 20.595
    Anisotropic B[1][1] -0.01
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.23
    Anisotropic B[2][2] 0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.09
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 1.949
    Number of Reflections(R-Free) 184
    Number of Reflections(R-Work) 3209
    R-Factor(R-Work) 0.249
    R-Factor(R-Free) 0.284
    Percent Reflections(Observed) 95.74
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.005
    r_chiral_restr 0.079
    r_dihedral_angle_4_deg 18.695
    r_dihedral_angle_3_deg 10.598
    r_dihedral_angle_2_deg 32.056
    r_dihedral_angle_1_deg 6.369
    r_angle_refined_deg 1.148
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4756
    Nucleic Acid Atoms 0
    Heterogen Atoms 200
    Solvent Atoms 382
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MXCuBE
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building MOLREP
    data collection MXCuBE