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X-RAY DIFFRACTION
Materials and Methods page
4HP1
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, sitting drop
    pH 7.5
    Temperature 291.0
    Details 30% PEG-1500, 0.2M sodium chloride, 0.1M HEPES, 5% MPD, pH 7.5, vapor diffusion, sitting drop, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 71.03 α = 90
    b = 39.52 β = 91.03
    c = 57.63 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 MARMOSAIC 300 mm CCD
    Collection Date 2012-01-26
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CLSI BEAMLINE 08ID-1
    Wavelength List 0.97949
    Site CLSI
    Beamline 08ID-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.25
    Resolution(Low) 35.51
    Number Reflections(Observed) 7738
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.046
    Redundancy 4.12
     
    High Resolution Shell Details
    Resolution(High) 2.25
    Resolution(Low) 2.37
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.49
    Redundancy 4.17
    Number Unique Reflections(All) 1110
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.25
    Resolution(Low) 35.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 7736
    Number of Reflections(R-Free) 351
    Percent Reflections(Observed) 99.781
    R-Factor(Observed) 0.221
    R-Work 0.2196
    R-Free 0.2502
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 70.547
    Anisotropic B[1][1] -2.092
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -1.375
    Anisotropic B[2][2] -3.406
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 5.448
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.25
    Shell Resolution(Low) 2.308
    Number of Reflections(R-Free) 26
    Number of Reflections(R-Work) 539
    R-Factor(R-Work) 0.467
    R-Factor(R-Free) 0.466
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.308
    Shell Resolution(Low) 2.371
    Number of Reflections(R-Free) 23
    Number of Reflections(R-Work) 515
    R-Factor(R-Work) 0.442
    R-Factor(R-Free) 0.575
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.371
    Shell Resolution(Low) 2.44
    Number of Reflections(R-Free) 24
    Number of Reflections(R-Work) 512
    R-Factor(R-Work) 0.38
    R-Factor(R-Free) 0.528
    Percent Reflections(Observed) 99.814
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.44
    Shell Resolution(Low) 2.514
    Number of Reflections(R-Free) 23
    Number of Reflections(R-Work) 498
    R-Factor(R-Work) 0.364
    R-Factor(R-Free) 0.405
    Percent Reflections(Observed) 99.808
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.514
    Shell Resolution(Low) 2.596
    Number of Reflections(R-Free) 19
    Number of Reflections(R-Work) 488
    R-Factor(R-Work) 0.339
    R-Factor(R-Free) 0.459
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.596
    Shell Resolution(Low) 2.687
    Number of Reflections(R-Free) 28
    Number of Reflections(R-Work) 458
    R-Factor(R-Work) 0.324
    R-Factor(R-Free) 0.371
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.687
    Shell Resolution(Low) 2.788
    Number of Reflections(R-Free) 18
    Number of Reflections(R-Work) 455
    R-Factor(R-Work) 0.315
    R-Factor(R-Free) 0.327
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.788
    Shell Resolution(Low) 2.901
    Number of Reflections(R-Free) 23
    Number of Reflections(R-Work) 445
    R-Factor(R-Work) 0.292
    R-Factor(R-Free) 0.359
    Percent Reflections(Observed) 99.787
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.901
    Shell Resolution(Low) 3.029
    Number of Reflections(R-Free) 23
    Number of Reflections(R-Work) 404
    R-Factor(R-Work) 0.262
    R-Factor(R-Free) 0.347
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.029
    Shell Resolution(Low) 3.175
    Number of Reflections(R-Free) 21
    Number of Reflections(R-Work) 395
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.258
    Percent Reflections(Observed) 99.76
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.175
    Shell Resolution(Low) 3.346
    Number of Reflections(R-Free) 12
    Number of Reflections(R-Work) 393
    R-Factor(R-Work) 0.198
    R-Factor(R-Free) 0.217
    Percent Reflections(Observed) 99.754
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.346
    Shell Resolution(Low) 3.547
    Number of Reflections(R-Free) 15
    Number of Reflections(R-Work) 350
    R-Factor(R-Work) 0.198
    R-Factor(R-Free) 0.252
    Percent Reflections(Observed) 99.455
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.547
    Shell Resolution(Low) 3.789
    Number of Reflections(R-Free) 10
    Number of Reflections(R-Work) 346
    R-Factor(R-Work) 0.214
    R-Factor(R-Free) 0.173
    Percent Reflections(Observed) 99.72
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.789
    Shell Resolution(Low) 4.088
    Number of Reflections(R-Free) 20
    Number of Reflections(R-Work) 321
    R-Factor(R-Work) 0.183
    R-Factor(R-Free) 0.249
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.088
    Shell Resolution(Low) 4.472
    Number of Reflections(R-Free) 17
    Number of Reflections(R-Work) 293
    R-Factor(R-Work) 0.157
    R-Factor(R-Free) 0.211
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.472
    Shell Resolution(Low) 4.99
    Number of Reflections(R-Free) 12
    Number of Reflections(R-Work) 273
    R-Factor(R-Work) 0.167
    R-Factor(R-Free) 0.176
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.99
    Shell Resolution(Low) 5.743
    Number of Reflections(R-Free) 11
    Number of Reflections(R-Work) 237
    R-Factor(R-Work) 0.172
    R-Factor(R-Free) 0.167
    Percent Reflections(Observed) 99.598
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.743
    Shell Resolution(Low) 6.986
    Number of Reflections(R-Free) 10
    Number of Reflections(R-Work) 202
    R-Factor(R-Work) 0.192
    R-Factor(R-Free) 0.221
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.986
    Shell Resolution(Low) 9.689
    Number of Reflections(R-Free) 10
    Number of Reflections(R-Work) 160
    R-Factor(R-Work) 0.172
    R-Factor(R-Free) 0.279
    Percent Reflections(Observed) 99.415
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 9.689
    Shell Resolution(Low) 35.0
    Number of Reflections(R-Free) 6
    Number of Reflections(R-Work) 100
    R-Factor(R-Work) 0.178
    R-Factor(R-Free) 0.161
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.008
    r_chiral_restr 0.061
    r_dihedral_angle_4_deg 17.228
    r_dihedral_angle_3_deg 15.397
    r_dihedral_angle_2_deg 33.295
    r_dihedral_angle_1_deg 5.478
    r_angle_other_deg 1.155
    r_angle_refined_deg 1.377
    r_bond_other_d 0.003
    r_bond_refined_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 383
    Nucleic Acid Atoms 487
    Heterogen Atoms 2
    Solvent Atoms 10
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) xds
    Data Reduction (data scaling) SCALA
    Structure Solution phaser
    Structure Refinement REFMAC 5.7.0027
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.7.0027
    molecular replacement Phaser
    data reduction SCALA version: CCP4_3.3.20