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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DO4
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 3.4
    Temperature 293.0
    Details 8-16% PEG3350, 70mM citric acid, 30mM Bis-Tris propane, pH 3.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 154.05 α = 90
    b = 114.62 β = 95.82
    c = 68.63 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Details PT COATED MIRROR
    Collection Date 2010-06-10
     
    Diffraction Radiation
    Monochromator SI(111) DOUBLE CRYSTAL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X25
    Wavelength List 1.100
    Site NSLS
    Beamline X25
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.4
    Resolution(Low) 50
    Number Reflections(Observed) 228468
    Percent Possible(Observed) 98.9
    R Merge I(Observed) 0.058
    Redundancy 5.1
     
    High Resolution Shell Details
    Resolution(High) 1.4
    Resolution(Low) 1.42
    Percent Possible(All) 94.9
    R Merge I(Observed) 0.842
    Redundancy 4.0
    Number Unique Reflections(All) 10879
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.4
    Resolution(Low) 26.63
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 228268
    Number of Reflections(R-Free) 11481
    Percent Reflections(Observed) 98.59
    R-Factor(Observed) 0.1433
    R-Work 0.1415
    R-Free 0.1776
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 31.11
    Anisotropic B[1][1] 0.02
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.05
    Anisotropic B[2][2] -0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.04
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.401
    Shell Resolution(Low) 1.437
    Number of Reflections(R-Free) 775
    Number of Reflections(R-Work) 14980
    R-Factor(R-Work) 0.357
    R-Factor(R-Free) 0.396
    Percent Reflections(Observed) 92.35
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 2.78
    r_scangle_it 13.901
    r_scbond_it 10.819
    r_mcangle_it 7.373
    r_mcbond_other 2.365
    r_bond_refined_d 0.012
    r_bond_other_d 0.001
    r_angle_refined_deg 1.457
    r_angle_other_deg 0.927
    r_dihedral_angle_1_deg 6.186
    r_dihedral_angle_2_deg 34.79
    r_dihedral_angle_3_deg 12.647
    r_dihedral_angle_4_deg 18.715
    r_chiral_restr 0.085
    r_gen_planes_refined 0.007
    r_gen_planes_other 0.001
    r_mcbond_it 5.886
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6279
    Nucleic Acid Atoms 0
    Heterogen Atoms 363
    Solvent Atoms 991
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5 version: 5.5.0109
    data reduction HKL