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X-RAY DIFFRACTION
Materials and Methods page
4B3D
  •   Crystallization Hide
    Crystallization Experiments
    pH 6.2
    Details 8% PEG-1000, 100 MM NAK PHOSPHATE, PH 6.2
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 40.28 α = 90
    b = 87.25 β = 91.5
    c = 62.63 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD(QUANTUM 210)
    Type ADSC
    Collection Date 2010-03-15
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength 0.976500
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.59
    Resolution(Low) 43.62
    Number Reflections(Observed) 57763
    Percent Possible(Observed) 99.2
    R Merge I(Observed) 0.06
    B(Isotropic) From Wilson Plot 25.1
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 1.59
    Resolution(Low) 1.69
    Percent Possible(All) 96.5
    R Merge I(Observed) 0.61
    Mean I Over Sigma(Observed) 2.19
    Redundancy 3.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.589
    Resolution(Low) 40.266
    Cut-off Sigma(F) 1.99
    Number of Reflections(Observed) 57753
    Number of Reflections(R-Free) 2935
    Percent Reflections(Observed) 99.2
    R-Factor(Observed) 0.1803
    R-Work 0.1786
    R-Free 0.212
     
    Temperature Factor Modeling
    Anisotropic B[1][1] 1.5699
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.1576
    Anisotropic B[2][2] -3.6616
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.0917
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5891
    Shell Resolution(Low) 1.6151
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2308
    R-Factor(R-Work) 0.2602
    R-Factor(R-Free) 0.2871
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6151
    Shell Resolution(Low) 1.643
    Number of Reflections(R-Free) 124
    Number of Reflections(R-Work) 2634
    R-Factor(R-Work) 0.2423
    R-Factor(R-Free) 0.2499
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.643
    Shell Resolution(Low) 1.6729
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2643
    R-Factor(R-Work) 0.231
    R-Factor(R-Free) 0.2942
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6729
    Shell Resolution(Low) 1.705
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2586
    R-Factor(R-Work) 0.2182
    R-Factor(R-Free) 0.2867
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.705
    Shell Resolution(Low) 1.7398
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2613
    R-Factor(R-Work) 0.2103
    R-Factor(R-Free) 0.2201
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7398
    Shell Resolution(Low) 1.7777
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2622
    R-Factor(R-Work) 0.1927
    R-Factor(R-Free) 0.2701
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7777
    Shell Resolution(Low) 1.819
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2633
    R-Factor(R-Work) 0.1927
    R-Factor(R-Free) 0.2266
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.819
    Shell Resolution(Low) 1.8645
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2596
    R-Factor(R-Work) 0.1865
    R-Factor(R-Free) 0.2358
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8645
    Shell Resolution(Low) 1.9149
    Number of Reflections(R-Free) 158
    Number of Reflections(R-Work) 2650
    R-Factor(R-Work) 0.1913
    R-Factor(R-Free) 0.2513
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9149
    Shell Resolution(Low) 1.9713
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2596
    R-Factor(R-Work) 0.1775
    R-Factor(R-Free) 0.2295
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9713
    Shell Resolution(Low) 2.0349
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2663
    R-Factor(R-Work) 0.174
    R-Factor(R-Free) 0.2307
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0349
    Shell Resolution(Low) 2.1076
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2611
    R-Factor(R-Work) 0.1626
    R-Factor(R-Free) 0.2073
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1076
    Shell Resolution(Low) 2.192
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2602
    R-Factor(R-Work) 0.1629
    R-Factor(R-Free) 0.1888
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.192
    Shell Resolution(Low) 2.2918
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2665
    R-Factor(R-Work) 0.1569
    R-Factor(R-Free) 0.2264
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2918
    Shell Resolution(Low) 2.4126
    Number of Reflections(R-Free) 124
    Number of Reflections(R-Work) 2628
    R-Factor(R-Work) 0.1676
    R-Factor(R-Free) 0.202
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4126
    Shell Resolution(Low) 2.5637
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2613
    R-Factor(R-Work) 0.1754
    R-Factor(R-Free) 0.2302
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5637
    Shell Resolution(Low) 2.7616
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2645
    R-Factor(R-Work) 0.1825
    R-Factor(R-Free) 0.2365
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7616
    Shell Resolution(Low) 3.0394
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2614
    R-Factor(R-Work) 0.1852
    R-Factor(R-Free) 0.2244
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0394
    Shell Resolution(Low) 3.479
    Number of Reflections(R-Free) 150
    Number of Reflections(R-Work) 2640
    R-Factor(R-Work) 0.1633
    R-Factor(R-Free) 0.1736
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.479
    Shell Resolution(Low) 4.3824
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2623
    R-Factor(R-Work) 0.1405
    R-Factor(R-Free) 0.1565
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.3824
    Shell Resolution(Low) 40.2791
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2633
    R-Factor(R-Work) 0.1701
    R-Factor(R-Free) 0.1807
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.069
    f_dihedral_angle_d 15.763
    f_angle_d 0.982
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3339
    Nucleic Acid Atoms 0
    Heterogen Atoms 50
    Solvent Atoms 672
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution AMORE
    Structure Refinement PHENIX (PHENIX.REFINE)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE)
    model building AMORE