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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IMX
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6
    Temperature 278.0
    Details 20-22% PEG3350, 0.1 M Cacodylate, 0.2 M Mg Acetate, 5 mM TCEP , pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 278K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 58.06 α = 90
    b = 106.6 β = 90
    c = 156.46 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 CCD
    Type ADSC QUANTUM 315
    Details mirrors
    Collection Date 2011-07-10
     
    Diffraction Radiation
    Monochromator graphite
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL7-1
    Wavelength List 1.097
    Site SSRL
    Beamline BL7-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.25
    Resolution(Low) 50
    Number Reflections(Observed) 46588
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.063
    B(Isotropic) From Wilson Plot 42.2
    Redundancy 3.6
     
    High Resolution Shell Details
    Resolution(High) 2.25
    Resolution(Low) 2.29
    Percent Possible(All) 99.8
    R Merge I(Observed) 0.653
    Mean I Over Sigma(Observed) 2.2
    R-Sym I(Observed) 0.653
    Redundancy 3.7
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 2.25
    Resolution(Low) 39.26
    Number of Reflections(Observed) 44205
    Number of Reflections(R-Free) 2320
    Percent Reflections(Observed) 99.32
    R-Factor(Observed) 0.17874
    R-Work 0.17644
    R-Free 0.22178
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 44.62
    Anisotropic B[1][1] 0.24
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.23
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.252
    Shell Resolution(Low) 2.31
    Number of Reflections(Observed) 3086
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 3086
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.318
    Percent Reflections(Observed) 95.42
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.69
    r_scbond_it 2.289
    r_mcangle_it 1.335
    r_mcbond_it 0.706
    r_gen_planes_refined 0.007
    r_chiral_restr 0.096
    r_dihedral_angle_4_deg 20.79
    r_dihedral_angle_3_deg 16.042
    r_dihedral_angle_2_deg 34.395
    r_dihedral_angle_1_deg 6.187
    r_angle_refined_deg 1.468
    r_bond_refined_d 0.015
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6446
    Nucleic Acid Atoms 0
    Heterogen Atoms 211
    Solvent Atoms 249
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu Ice
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution REFMAC
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building REFMAC
    data collection Blu version: Ice