POP-OUT | CLOSE

An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IM2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.7
    Temperature 293.0
    Details 4% (w/v) PEG8000, 100 mM Tris pH 8.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 133.92 α = 90
    b = 133.92 β = 90
    c = 85.56 γ = 120
     
    Space Group
    Space Group Name:    P 32 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2011-06-30
     
    Diffraction Radiation
    Monochromator MD2 micro-diffractometer
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 24-ID-E
    Wavelength List 0.97918
    Site APS
    Beamline 24-ID-E
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.5
    Resolution(Low) 50
    Number Reflections(All) 31038
    Number Reflections(Observed) 30831
    Percent Possible(Observed) 99.3
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.69
    Percent Possible(All) 99.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.5001
    Resolution(Low) 36.051
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 30924
    Number of Reflections(Observed) 30674
    Number of Reflections(R-Free) 1541
    Percent Reflections(Observed) 99.19
    R-Factor(All) 0.1998
    R-Factor(Observed) 0.1998
    R-Work 0.197
    R-Free 0.2548
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -5.7072
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -5.7072
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 11.4145
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5001
    Shell Resolution(Low) 2.5807
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2585
    R-Factor(R-Work) 0.3044
    R-Factor(R-Free) 0.4049
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5807
    Shell Resolution(Low) 2.6729
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2604
    R-Factor(R-Work) 0.2734
    R-Factor(R-Free) 0.3297
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6729
    Shell Resolution(Low) 2.7799
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2653
    R-Factor(R-Work) 0.2548
    R-Factor(R-Free) 0.3061
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7799
    Shell Resolution(Low) 2.9064
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2592
    R-Factor(R-Work) 0.2424
    R-Factor(R-Free) 0.3685
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9064
    Shell Resolution(Low) 3.0596
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2649
    R-Factor(R-Work) 0.2512
    R-Factor(R-Free) 0.3502
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0596
    Shell Resolution(Low) 3.2511
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2629
    R-Factor(R-Work) 0.2377
    R-Factor(R-Free) 0.305
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2511
    Shell Resolution(Low) 3.502
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2629
    R-Factor(R-Work) 0.2252
    R-Factor(R-Free) 0.2675
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.502
    Shell Resolution(Low) 3.854
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2665
    R-Factor(R-Work) 0.201
    R-Factor(R-Free) 0.2705
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.854
    Shell Resolution(Low) 4.4108
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2666
    R-Factor(R-Work) 0.1777
    R-Factor(R-Free) 0.2342
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.4108
    Shell Resolution(Low) 5.5539
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2681
    R-Factor(R-Work) 0.1642
    R-Factor(R-Free) 0.2124
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.5539
    Shell Resolution(Low) 36.0543
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2780
    R-Factor(R-Work) 0.1851
    R-Factor(R-Free) 0.2315
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.071
    f_dihedral_angle_d 17.004
    f_angle_d 1.286
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4921
    Nucleic Acid Atoms 0
    Heterogen Atoms 35
    Solvent Atoms 240
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution SHARP
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.3_928)
    model building SHARP
    data collection HKL-2000