POP-OUT | CLOSE

An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4E10
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.4
    Temperature 293.0
    Details 5% (w/v) PEG 4000, 10mM Tris-HCl, 300mM NaCl , pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 116.34 α = 90
    b = 119.66 β = 111.3
    c = 56.63 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 96
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2010-02-10
     
    Diffraction Radiation
    Monochromator Si 111
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 24-ID-C
    Wavelength List 0.979
    Site APS
    Beamline 24-ID-C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.5
    Resolution(Low) 50
    Number Reflections(All) 18263
    Number Reflections(Observed) 18263
    Percent Possible(Observed) 73.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.506
    Resolution(Low) 35.05
    Cut-off Sigma(F) 1.35
    Number of Reflections(all) 18246
    Number of Reflections(Observed) 18246
    Number of Reflections(R-Free) 954
    Percent Reflections(Observed) 73.49
    R-Factor(Observed) 0.1877
    R-Work 0.1832
    R-Free 0.2701
     
    Temperature Factor Modeling
    Anisotropic B[1][1] 3.7923
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.22
    Anisotropic B[2][2] 0.0479
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -3.8402
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.506
    Shell Resolution(Low) 2.638
    Number of Reflections(R-Free) 43
    Number of Reflections(R-Work) 760
    R-Factor(R-Work) 0.2959
    R-Factor(R-Free) 0.3692
    Percent Reflections(Observed) 23.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.638
    Shell Resolution(Low) 2.8032
    Number of Reflections(R-Free) 80
    Number of Reflections(R-Work) 1510
    R-Factor(R-Work) 0.3035
    R-Factor(R-Free) 0.3863
    Percent Reflections(Observed) 45.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8032
    Shell Resolution(Low) 3.0196
    Number of Reflections(R-Free) 131
    Number of Reflections(R-Work) 2248
    R-Factor(R-Work) 0.2777
    R-Factor(R-Free) 0.3278
    Percent Reflections(Observed) 68.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0196
    Shell Resolution(Low) 3.3232
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 3031
    R-Factor(R-Work) 0.2222
    R-Factor(R-Free) 0.3188
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3232
    Shell Resolution(Low) 3.8036
    Number of Reflections(R-Free) 180
    Number of Reflections(R-Work) 3248
    R-Factor(R-Work) 0.1896
    R-Factor(R-Free) 0.3089
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8036
    Shell Resolution(Low) 4.7902
    Number of Reflections(R-Free) 185
    Number of Reflections(R-Work) 3237
    R-Factor(R-Work) 0.1389
    R-Factor(R-Free) 0.2071
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.7902
    Shell Resolution(Low) 35.0538
    Number of Reflections(R-Free) 180
    Number of Reflections(R-Work) 3258
    R-Factor(R-Work) 0.1449
    R-Factor(R-Free) 0.2283
    Percent Reflections(Observed) 95.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.007
    f_chiral_restr 0.098
    f_dihedral_angle_d 21.961
    f_angle_d 1.837
    f_bond_d 0.015
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2514
    Nucleic Acid Atoms 570
    Heterogen Atoms 17
    Solvent Atoms 177
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: dev_1184)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.3_928)
    model building PHASER
    data collection ADSC version: Quantum