POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4EU5
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.2
    Temperature 298.0
    Details 0.9 M sodium citrate, 0.1 M imidazole, 25 mM 2-mercaptoethanol, and 2 mM acetyl-CoA, pH 8.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 67.61 α = 90
    b = 110.56 β = 90
    c = 119.46 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 MARMOSAIC 300 mm CCD
    Collection Date 2010-07-01
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-D
    Wavelength List 1.0331
    Site APS
    Beamline 23-ID-D
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.74
    Resolution(Low) 50
    Number Reflections(All) 91574
    Number Reflections(Observed) 91574
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.124
    Redundancy 9.5
     
    High Resolution Shell Details
    Resolution(High) 1.75
    Resolution(Low) 1.81
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.623
    Mean I Over Sigma(Observed) 3.6
    R-Sym I(Observed) 0.623
    Redundancy 7.3
    Number Unique Reflections(All) 9057
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.743
    Resolution(Low) 42.795
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 88314
    Number of Reflections(R-Free) 4400
    Percent Reflections(Observed) 96.06
    R-Factor(Observed) 0.1695
    R-Work 0.1674
    R-Free 0.2086
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 18.0268
    Anisotropic B[1][1] 0.4232
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.0447
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -3.468
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7432
    Shell Resolution(Low) 1.8055
    Number of Reflections(Observed) 7847
    Number of Reflections(R-Free) 398
    Number of Reflections(R-Work) 7449
    R-Factor(R-Work) 0.2176
    R-Factor(R-Free) 0.2825
    Percent Reflections(Observed) 86.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8055
    Shell Resolution(Low) 1.8778
    Number of Reflections(Observed) 8473
    Number of Reflections(R-Free) 393
    Number of Reflections(R-Work) 8080
    R-Factor(R-Work) 0.1971
    R-Factor(R-Free) 0.2579
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8778
    Shell Resolution(Low) 1.9633
    Number of Reflections(Observed) 8532
    Number of Reflections(R-Free) 424
    Number of Reflections(R-Work) 8108
    R-Factor(R-Work) 0.1803
    R-Factor(R-Free) 0.24
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9633
    Shell Resolution(Low) 2.0668
    Number of Reflections(Observed) 8707
    Number of Reflections(R-Free) 437
    Number of Reflections(R-Work) 8270
    R-Factor(R-Work) 0.1711
    R-Factor(R-Free) 0.2309
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0668
    Shell Resolution(Low) 2.1963
    Number of Reflections(Observed) 8843
    Number of Reflections(R-Free) 442
    Number of Reflections(R-Work) 8401
    R-Factor(R-Work) 0.1632
    R-Factor(R-Free) 0.2121
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1963
    Shell Resolution(Low) 2.3658
    Number of Reflections(Observed) 8947
    Number of Reflections(R-Free) 470
    Number of Reflections(R-Work) 8477
    R-Factor(R-Work) 0.1753
    R-Factor(R-Free) 0.2318
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3658
    Shell Resolution(Low) 2.6039
    Number of Reflections(Observed) 9041
    Number of Reflections(R-Free) 451
    Number of Reflections(R-Work) 8590
    R-Factor(R-Work) 0.1725
    R-Factor(R-Free) 0.2137
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6039
    Shell Resolution(Low) 2.9806
    Number of Reflections(Observed) 9100
    Number of Reflections(R-Free) 453
    Number of Reflections(R-Work) 8647
    R-Factor(R-Work) 0.1749
    R-Factor(R-Free) 0.2186
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9806
    Shell Resolution(Low) 3.7549
    Number of Reflections(Observed) 9263
    Number of Reflections(R-Free) 455
    Number of Reflections(R-Work) 8808
    R-Factor(R-Work) 0.159
    R-Factor(R-Free) 0.1918
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7549
    Shell Resolution(Low) 42.808
    Number of Reflections(Observed) 9561
    Number of Reflections(R-Free) 477
    Number of Reflections(R-Work) 9084
    R-Factor(R-Work) 0.1468
    R-Factor(R-Free) 0.1662
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 14.988
    f_plane_restr 0.006
    f_chiral_restr 0.07
    f_angle_d 1.06
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7768
    Nucleic Acid Atoms 0
    Heterogen Atoms 100
    Solvent Atoms 981
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.6.3_473)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement phenix
    data reduction HKL