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X-RAY DIFFRACTION
Materials and Methods page
4C5X
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.5
    Details 40% MPD, SPERMINE, MAGNESIUM CHLORIDE, SODIUM CACODYLATE PH 7.5
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 25.3 α = 90
    b = 40.27 β = 90
    c = 64.88 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL (PILATUS 2M)
    Type DECTRIS
    Details MIRRORS
    Collection Date 2011-07-24
     
    Diffraction Radiation
    Monochromator SI (111) DOUBLE CRYSTAL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type DIAMOND BEAMLINE I04-1
    Wavelength 0.917300
    Site DIAMOND
    Beamline I04-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.21
    Resolution(Low) 34.22
    Number Reflections(Observed) 19814
    Percent Possible(Observed) 95.8
    R Merge I(Observed) 0.02
    B(Isotropic) From Wilson Plot 15.58
    Redundancy 5.3
     
    High Resolution Shell Details
    Resolution(High) 1.21
    Resolution(Low) 1.24
    Percent Possible(All) 79.4
    R Merge I(Observed) 0.52
    Mean I Over Sigma(Observed) 2.4
    Redundancy 4.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.3
    Resolution(Low) 34.2
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 17362
    Number of Reflections(R-Free) 2971
    Percent Reflections(Observed) 93.78
    R-Factor(Observed) 0.1452
    R-Work 0.1421
    R-Free 0.1734
     
    Temperature Factor Modeling
    Mean Isotropic B Value 22.06
    Anisotropic B[1][1] 7.7695
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -6.7934
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.9761
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3
    Shell Resolution(Low) 1.3213
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 1167
    R-Factor(R-Work) 0.1948
    R-Factor(R-Free) 0.2261
    Percent Reflections(Observed) 84.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3213
    Shell Resolution(Low) 1.3441
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 1149
    R-Factor(R-Work) 0.1855
    R-Factor(R-Free) 0.2134
    Percent Reflections(Observed) 85.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3441
    Shell Resolution(Low) 1.3685
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1180
    R-Factor(R-Work) 0.1809
    R-Factor(R-Free) 0.2285
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3685
    Shell Resolution(Low) 1.3949
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 1240
    R-Factor(R-Work) 0.1621
    R-Factor(R-Free) 0.2393
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3949
    Shell Resolution(Low) 1.4233
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 1214
    R-Factor(R-Work) 0.1664
    R-Factor(R-Free) 0.2242
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4233
    Shell Resolution(Low) 1.4543
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 1259
    R-Factor(R-Work) 0.1503
    R-Factor(R-Free) 0.2022
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4543
    Shell Resolution(Low) 1.4881
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 1296
    R-Factor(R-Work) 0.1595
    R-Factor(R-Free) 0.2397
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4881
    Shell Resolution(Low) 1.5253
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 1201
    R-Factor(R-Work) 0.1401
    R-Factor(R-Free) 0.1885
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5253
    Shell Resolution(Low) 1.5666
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1300
    R-Factor(R-Work) 0.1195
    R-Factor(R-Free) 0.1947
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5666
    Shell Resolution(Low) 1.6127
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1291
    R-Factor(R-Work) 0.1129
    R-Factor(R-Free) 0.1627
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6127
    Shell Resolution(Low) 1.6647
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 1284
    R-Factor(R-Work) 0.1001
    R-Factor(R-Free) 0.1261
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6647
    Shell Resolution(Low) 1.7242
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 1299
    R-Factor(R-Work) 0.0979
    R-Factor(R-Free) 0.1537
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7242
    Shell Resolution(Low) 1.7932
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 1330
    R-Factor(R-Work) 0.1065
    R-Factor(R-Free) 0.1331
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7932
    Shell Resolution(Low) 1.8749
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1312
    R-Factor(R-Work) 0.1243
    R-Factor(R-Free) 0.1795
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8749
    Shell Resolution(Low) 1.9737
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 1322
    R-Factor(R-Work) 0.1294
    R-Factor(R-Free) 0.1921
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9737
    Shell Resolution(Low) 2.0973
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1237
    R-Factor(R-Work) 0.1325
    R-Factor(R-Free) 0.1572
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0973
    Shell Resolution(Low) 2.2592
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1318
    R-Factor(R-Work) 0.1357
    R-Factor(R-Free) 0.1952
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2592
    Shell Resolution(Low) 2.4865
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1324
    R-Factor(R-Work) 0.1655
    R-Factor(R-Free) 0.2007
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4865
    Shell Resolution(Low) 2.8462
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 1300
    R-Factor(R-Work) 0.1505
    R-Factor(R-Free) 0.1917
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8462
    Shell Resolution(Low) 3.5853
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 1286
    R-Factor(R-Work) 0.1645
    R-Factor(R-Free) 0.1664
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.5853
    Shell Resolution(Low) 34.2269
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 1288
    R-Factor(R-Work) 0.1385
    R-Factor(R-Free) 0.1432
    Percent Reflections(Observed) 96.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.041
    f_chiral_restr 0.124
    f_dihedral_angle_d 30.11
    f_angle_d 2.486
    f_bond_d 0.022
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 490
    Heterogen Atoms 1
    Solvent Atoms 136
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XIA2
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement PHENIX (PHENIX.REFINE)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE)
    model building PHASER