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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4ELT
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 291.0
    Details 50 mM Na cacodylate pH=6.5, 0.2 M NH4(OAc), 10 mM Mg(OAc)2, 28% PEG 8000, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 108.86 α = 90
    b = 108.86 β = 90
    c = 91 γ = 120
     
    Space Group
    Space Group Name:    P 31 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2010-05-20
     
    Diffraction Radiation
    Monochromator Bartels Monochromator with dual channel cut crystals (DCCM)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X06DA
    Wavelength List 1.00
    Site SLS
    Beamline X06DA
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.19
    Resolution(Low) 50
    Number Reflections(All) 32014
    Number Reflections(Observed) 32014
    Percent Possible(Observed) 98.5
     
    High Resolution Shell Details
    Resolution(High) 2.19
    Resolution(Low) 2.32
    Percent Possible(All) 90.6
    R Merge I(Observed) 0.802
    Mean I Over Sigma(Observed) 2.06
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 47.138
    Cut-off Sigma(F) 2.0
    Number of Reflections(all) 31776
    Number of Reflections(Observed) 31776
    Number of Reflections(R-Free) 1598
    Percent Reflections(Observed) 99.22
    R-Factor(Observed) 0.1627
    R-Work 0.1602
    R-Free 0.2088
     
    Temperature Factor Modeling
    Isotropic Thermal Model isotropic and tls
    Anisotropic B[1][1] 7.6072
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 7.6072
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 3.8507
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2
    Shell Resolution(Low) 2.271
    Number of Reflections(R-Free) 119
    Number of Reflections(R-Work) 2538
    R-Factor(R-Work) 0.2399
    R-Factor(R-Free) 0.2984
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.271
    Shell Resolution(Low) 2.3522
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2723
    R-Factor(R-Work) 0.2029
    R-Factor(R-Free) 0.2727
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3522
    Shell Resolution(Low) 2.4464
    Number of Reflections(R-Free) 123
    Number of Reflections(R-Work) 2750
    R-Factor(R-Work) 0.1965
    R-Factor(R-Free) 0.2712
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4464
    Shell Resolution(Low) 2.5577
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2721
    R-Factor(R-Work) 0.19
    R-Factor(R-Free) 0.2725
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5577
    Shell Resolution(Low) 2.6925
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2740
    R-Factor(R-Work) 0.1656
    R-Factor(R-Free) 0.2589
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6925
    Shell Resolution(Low) 2.8612
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2748
    R-Factor(R-Work) 0.167
    R-Factor(R-Free) 0.2223
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8612
    Shell Resolution(Low) 3.0821
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2757
    R-Factor(R-Work) 0.1566
    R-Factor(R-Free) 0.222
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0821
    Shell Resolution(Low) 3.3922
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2761
    R-Factor(R-Work) 0.1539
    R-Factor(R-Free) 0.2033
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3922
    Shell Resolution(Low) 3.8828
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 2745
    R-Factor(R-Work) 0.1452
    R-Factor(R-Free) 0.186
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8828
    Shell Resolution(Low) 4.8911
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2802
    R-Factor(R-Work) 0.1347
    R-Factor(R-Free) 0.1736
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.8911
    Shell Resolution(Low) 47.1486
    Number of Reflections(R-Free) 163
    Number of Reflections(R-Work) 2893
    R-Factor(R-Work) 0.1609
    R-Factor(R-Free) 0.1893
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.005
    f_chiral_restr 0.07
    f_dihedral_angle_d 16.647
    f_angle_d 1.129
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4286
    Nucleic Acid Atoms 569
    Heterogen Atoms 111
    Solvent Atoms 245
     
     
  •   Software and Computing Hide
    Computing
    Data Collection XDS
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution PHENIX (phenix.refine: 1.7.2_869)
    Structure Refinement PHENIX (phenix.refine: dev_1009)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.2_869)
    model building PHENIX version: (phenix.refine: 1.7.2_869)
    data collection XDS