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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4I4K
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 4.2
    Temperature 289.0
    Details 0.1 M disodium hydrogen phosphate citric acid pH 4.2, 40 %(w/v) PEG300, VAPOR DIFFUSION, SITTING DROP, temperature 289K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 72.71 α = 90
    b = 86.9 β = 121.58
    c = 55.26 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 315r
    Details mirrors
    Collection Date 2012-04-15
     
    Diffraction Radiation
    Monochromator double crystal monochromator
    Diffraction Protocol SAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 19-ID
    Wavelength List 0.97921
    Site APS
    Beamline 19-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.7
    Resolution(Low) 50
    Number Reflections(All) 31922
    Number Reflections(Observed) 31922
    Percent Possible(Observed) 99.3
    B(Isotropic) From Wilson Plot 14.7
    Redundancy 3.9
     
    High Resolution Shell Details
    Resolution(High) 1.7
    Resolution(Low) 1.73
    Percent Possible(All) 98.2
    Mean I Over Sigma(Observed) 3.0
    R-Sym I(Observed) 0.498
    Redundancy 2.8
    Number Unique Reflections(All) 1594
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.7
    Resolution(Low) 27.683
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 30859
    Number of Reflections(Observed) 30859
    Number of Reflections(R-Free) 1564
    Percent Reflections(Observed) 95.92
    R-Factor(All) 0.169
    R-Factor(Observed) 0.169
    R-Work 0.168
    R-Free 0.195
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Isotropic Thermal Model mixed
    Mean Isotropic B Value 24.2
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7001
    Shell Resolution(Low) 1.755
    Number of Reflections(Observed) 2046
    Number of Reflections(R-Free) 110
    Number of Reflections(R-Work) 1936
    R-Factor(R-Work) 0.2113
    R-Factor(R-Free) 0.2589
    Percent Reflections(Observed) 71.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.755
    Shell Resolution(Low) 1.8177
    Number of Reflections(Observed) 2638
    Number of Reflections(R-Free) 115
    Number of Reflections(R-Work) 2523
    R-Factor(R-Work) 0.192
    R-Factor(R-Free) 0.2614
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8177
    Shell Resolution(Low) 1.8905
    Number of Reflections(Observed) 2883
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2742
    R-Factor(R-Work) 0.1809
    R-Factor(R-Free) 0.1986
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8905
    Shell Resolution(Low) 1.9765
    Number of Reflections(Observed) 2853
    Number of Reflections(R-Free) 161
    Number of Reflections(R-Work) 2692
    R-Factor(R-Work) 0.1693
    R-Factor(R-Free) 0.195
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9765
    Shell Resolution(Low) 2.0807
    Number of Reflections(Observed) 2899
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2760
    R-Factor(R-Work) 0.1606
    R-Factor(R-Free) 0.1805
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0807
    Shell Resolution(Low) 2.211
    Number of Reflections(Observed) 2895
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2744
    R-Factor(R-Work) 0.1585
    R-Factor(R-Free) 0.1827
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.211
    Shell Resolution(Low) 2.3816
    Number of Reflections(Observed) 2911
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2776
    R-Factor(R-Work) 0.1632
    R-Factor(R-Free) 0.1914
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3816
    Shell Resolution(Low) 2.6211
    Number of Reflections(Observed) 2904
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2762
    R-Factor(R-Work) 0.1734
    R-Factor(R-Free) 0.2334
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6211
    Shell Resolution(Low) 3.0
    Number of Reflections(Observed) 2934
    Number of Reflections(R-Free) 160
    Number of Reflections(R-Work) 2774
    R-Factor(R-Work) 0.1802
    R-Factor(R-Free) 0.2187
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0
    Shell Resolution(Low) 3.7781
    Number of Reflections(Observed) 2944
    Number of Reflections(R-Free) 163
    Number of Reflections(R-Work) 2781
    R-Factor(R-Work) 0.1676
    R-Factor(R-Free) 0.2004
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7781
    Shell Resolution(Low) 27.6862
    Number of Reflections(Observed) 2952
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2805
    R-Factor(R-Work) 0.154
    R-Factor(R-Free) 0.156
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.006
    f_chiral_restr 0.1
    f_dihedral_angle_d 18.058
    f_angle_d 1.325
    f_bond_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1976
    Nucleic Acid Atoms 0
    Heterogen Atoms 66
    Solvent Atoms 210
     
     
  •   Software and Computing Hide
    Computing
    Data Collection SBCCOLLECT, HKL3000
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) HKL-3000
    Structure Solution HKL3000, SHELXS,MLPHARE,Arp/Warp
    Structure Refinement PHENIX (phenix.refine: 1.8.1_1161)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8.1_1161)
    model building Arp/Warp
    model building MLPHARE
    model building SHELXS
    model building HKL3000
    data collection HKL3000
    data collection SBCCOLLECT