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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DO5
  •   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 = 154.35 α = 90
    b = 114.51 β = 95.64
    c = 68.55 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 210
    Details TOROIDAL FOCUSING MIRROR
    Collection Date 2008-10-12
     
    Diffraction Radiation
    Monochromator SI(111) CHANNEL CUT
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X6A
    Wavelength List 1.000
    Site NSLS
    Beamline X6A
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.5
    Resolution(Low) 50
    Number Reflections(Observed) 178912
    Percent Possible(Observed) 96.1
    R Merge I(Observed) 0.046
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 1.5
    Resolution(Low) 1.55
    Percent Possible(All) 73.2
    R Merge I(Observed) 0.644
    Redundancy 2.9
    Number Unique Reflections(All) 13588
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.51
    Resolution(Low) 31.89
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 178628
    Number of Reflections(R-Free) 9021
    Percent Reflections(Observed) 95.57
    R-Factor(Observed) 0.1601
    R-Work 0.1592
    R-Free 0.1779
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 29.5642
    Anisotropic B[1][1] -0.02
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.18
    Anisotropic B[2][2] -0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.11
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.51
    Shell Resolution(Low) 1.544
    Number of Reflections(R-Free) 454
    Number of Reflections(R-Work) 8577
    R-Factor(R-Work) 0.311
    R-Factor(R-Free) 0.324
    Percent Reflections(Observed) 65.61
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 8.533
    r_scbond_it 5.924
    r_mcangle_it 3.859
    r_mcbond_other 1.047
    r_bond_refined_d 0.01
    r_bond_other_d 0.001
    r_angle_refined_deg 1.361
    r_angle_other_deg 0.886
    r_dihedral_angle_1_deg 6.291
    r_dihedral_angle_2_deg 35.257
    r_dihedral_angle_3_deg 12.461
    r_dihedral_angle_4_deg 18.342
    r_chiral_restr 0.083
    r_gen_planes_refined 0.006
    r_gen_planes_other 0.001
    r_mcbond_it 2.627
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6279
    Nucleic Acid Atoms 0
    Heterogen Atoms 338
    Solvent Atoms 1022
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5 version: 5.5.0109
    data reduction HKL