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X-RAY DIFFRACTION
Materials and Methods page
1SVT
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.5
    Temperature 298.0
    Details PEG3000, cacodylic acid, potassium chloride, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 255.55 α = 90
    b = 266.86 β = 90
    c = 187.05 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.8
    Resolution(Low) 50
    Number Reflections(Observed) 231127
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.808
    Resolution(Low) 49.386
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 231127
    Number of Reflections(Observed) 231127
    Number of Reflections(R-Free) 4675
    R-Factor(All) 0.248
    R-Factor(Observed) 0.248
    R-Work 0.2471
    R-Free 0.2741
     
    Temperature Factor Modeling
    Mean Isotropic B Value 2.535
    Anisotropic B[1][1] -4.331
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -3.725
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 8.056
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.808
    Shell Resolution(Low) 2.8807
    Number of Reflections(R-Free) 161
    Number of Reflections(R-Work) 8725
    R-Factor(R-Work) 0.427
    R-Factor(R-Free) 0.518
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.881
    Shell Resolution(Low) 2.9594
    Number of Reflections(R-Free) 220
    Number of Reflections(R-Work) 10224
    R-Factor(R-Work) 0.395
    R-Factor(R-Free) 0.398
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.959
    Shell Resolution(Low) 3.0448
    Number of Reflections(R-Free) 225
    Number of Reflections(R-Work) 11659
    R-Factor(R-Work) 0.355
    R-Factor(R-Free) 0.395
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.045
    Shell Resolution(Low) 3.1382
    Number of Reflections(R-Free) 268
    Number of Reflections(R-Work) 13222
    R-Factor(R-Work) 0.337
    R-Factor(R-Free) 0.372
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.138
    Shell Resolution(Low) 3.2407
    Number of Reflections(R-Free) 288
    Number of Reflections(R-Work) 14337
    R-Factor(R-Work) 0.312
    R-Factor(R-Free) 0.319
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.241
    Shell Resolution(Low) 3.3539
    Number of Reflections(R-Free) 316
    Number of Reflections(R-Work) 14909
    R-Factor(R-Work) 0.303
    R-Factor(R-Free) 0.341
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.354
    Shell Resolution(Low) 3.4799
    Number of Reflections(R-Free) 299
    Number of Reflections(R-Work) 15092
    R-Factor(R-Work) 0.293
    R-Factor(R-Free) 0.301
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.48
    Shell Resolution(Low) 3.6212
    Number of Reflections(R-Free) 304
    Number of Reflections(R-Work) 14745
    R-Factor(R-Work) 0.256
    R-Factor(R-Free) 0.289
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.621
    Shell Resolution(Low) 3.7813
    Number of Reflections(R-Free) 303
    Number of Reflections(R-Work) 14475
    R-Factor(R-Work) 0.265
    R-Factor(R-Free) 0.292
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.781
    Shell Resolution(Low) 3.9647
    Number of Reflections(R-Free) 279
    Number of Reflections(R-Work) 13514
    R-Factor(R-Work) 0.242
    R-Factor(R-Free) 0.256
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.965
    Shell Resolution(Low) 4.1777
    Number of Reflections(R-Free) 255
    Number of Reflections(R-Work) 13604
    R-Factor(R-Work) 0.199
    R-Factor(R-Free) 0.208
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.178
    Shell Resolution(Low) 4.4291
    Number of Reflections(R-Free) 260
    Number of Reflections(R-Work) 13379
    R-Factor(R-Work) 0.179
    R-Factor(R-Free) 0.221
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.429
    Shell Resolution(Low) 4.7322
    Number of Reflections(R-Free) 266
    Number of Reflections(R-Work) 12583
    R-Factor(R-Work) 0.18
    R-Factor(R-Free) 0.227
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.732
    Shell Resolution(Low) 5.1075
    Number of Reflections(R-Free) 235
    Number of Reflections(R-Work) 12040
    R-Factor(R-Work) 0.202
    R-Factor(R-Free) 0.233
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.107
    Shell Resolution(Low) 5.589
    Number of Reflections(R-Free) 239
    Number of Reflections(R-Work) 11173
    R-Factor(R-Work) 0.252
    R-Factor(R-Free) 0.316
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.589
    Shell Resolution(Low) 6.2387
    Number of Reflections(R-Free) 203
    Number of Reflections(R-Work) 10314
    R-Factor(R-Work) 0.271
    R-Factor(R-Free) 0.262
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.239
    Shell Resolution(Low) 7.1847
    Number of Reflections(R-Free) 207
    Number of Reflections(R-Work) 9307
    R-Factor(R-Work) 0.239
    R-Factor(R-Free) 0.277
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 7.185
    Shell Resolution(Low) 8.7533
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 8077
    R-Factor(R-Work) 0.169
    R-Factor(R-Free) 0.195
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.753
    Shell Resolution(Low) 12.189
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 6297
    R-Factor(R-Work) 0.148
    R-Factor(R-Free) 0.152
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 12.189
    Shell Resolution(Low) 49.3865
    Number of Reflections(R-Free) 71
    Number of Reflections(R-Work) 3451
    R-Factor(R-Work) 0.281
    R-Factor(R-Free) 0.288
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.235
    r_scbond_it 0.84
    r_mcangle_it 0.386
    r_mcbond_it 0.218
    r_symmetry_vdw_refined 0.324
    r_metal_ion_refined 0.264
    r_symmetry_hbond_refined 0.173
    r_gen_planes_refined 0.006
    r_chiral_restr 0.123
    r_dihedral_angle_1_deg 6.242
    r_angle_refined_deg 2.039
    r_bond_refined_d 0.027
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 59073
    Nucleic Acid Atoms 0
    Heterogen Atoms 231
    Solvent Atoms 194
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement REFMAC 5
     
    Software
    refinement REFMAC5 (CCP4: Supported Program) version: refmac_5.1.19