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X-RAY DIFFRACTION
Materials and Methods page
4HP3
  •   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, pH 7.5, vapor diffusion, sitting drop, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 69.89 α = 90
    b = 39.46 β = 99.92
    c = 54.13 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 2012-01-25
     
    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) 2.05
    Resolution(Low) 34.42
    Number Reflections(Observed) 9281
    Percent Possible(Observed) 99.79
    R Merge I(Observed) 0.053
    Redundancy 3.71
     
    High Resolution Shell Details
    Resolution(High) 2.05
    Resolution(Low) 2.16
    Percent Possible(All) 99.85
    R Merge I(Observed) 0.67
    Redundancy 3.71
    Number Unique Reflections(All) 1345
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.05
    Resolution(Low) 30.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 9281
    Number of Reflections(R-Free) 452
    Percent Reflections(Observed) 99.678
    R-Factor(Observed) 0.217
    R-Work 0.2155
    R-Free 0.2434
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 52.769
    Anisotropic B[1][1] -1.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.395
    Anisotropic B[2][2] -0.739
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.875
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.05
    Shell Resolution(Low) 2.103
    Number of Reflections(R-Free) 32
    Number of Reflections(R-Work) 651
    R-Factor(R-Work) 0.321
    R-Factor(R-Free) 0.415
    Percent Reflections(Observed) 99.708
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.103
    Shell Resolution(Low) 2.16
    Number of Reflections(R-Free) 30
    Number of Reflections(R-Work) 631
    R-Factor(R-Work) 0.278
    R-Factor(R-Free) 0.345
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.16
    Shell Resolution(Low) 2.223
    Number of Reflections(R-Free) 35
    Number of Reflections(R-Work) 628
    R-Factor(R-Work) 0.268
    R-Factor(R-Free) 0.288
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.223
    Shell Resolution(Low) 2.291
    Number of Reflections(R-Free) 27
    Number of Reflections(R-Work) 568
    R-Factor(R-Work) 0.267
    R-Factor(R-Free) 0.297
    Percent Reflections(Observed) 99.832
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.291
    Shell Resolution(Low) 2.365
    Number of Reflections(R-Free) 24
    Number of Reflections(R-Work) 601
    R-Factor(R-Work) 0.243
    R-Factor(R-Free) 0.187
    Percent Reflections(Observed) 99.84
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.365
    Shell Resolution(Low) 2.448
    Number of Reflections(R-Free) 32
    Number of Reflections(R-Work) 542
    R-Factor(R-Work) 0.232
    R-Factor(R-Free) 0.292
    Percent Reflections(Observed) 99.653
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.448
    Shell Resolution(Low) 2.54
    Number of Reflections(R-Free) 25
    Number of Reflections(R-Work) 531
    R-Factor(R-Work) 0.238
    R-Factor(R-Free) 0.312
    Percent Reflections(Observed) 99.642
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.54
    Shell Resolution(Low) 2.642
    Number of Reflections(R-Free) 28
    Number of Reflections(R-Work) 527
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.365
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.642
    Shell Resolution(Low) 2.759
    Number of Reflections(R-Free) 19
    Number of Reflections(R-Work) 490
    R-Factor(R-Work) 0.288
    R-Factor(R-Free) 0.264
    Percent Reflections(Observed) 99.414
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.759
    Shell Resolution(Low) 2.892
    Number of Reflections(R-Free) 22
    Number of Reflections(R-Work) 499
    R-Factor(R-Work) 0.287
    R-Factor(R-Free) 0.278
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.892
    Shell Resolution(Low) 3.047
    Number of Reflections(R-Free) 33
    Number of Reflections(R-Work) 436
    R-Factor(R-Work) 0.24
    R-Factor(R-Free) 0.312
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.047
    Shell Resolution(Low) 3.23
    Number of Reflections(R-Free) 28
    Number of Reflections(R-Work) 424
    R-Factor(R-Work) 0.25
    R-Factor(R-Free) 0.289
    Percent Reflections(Observed) 99.779
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.23
    Shell Resolution(Low) 3.45
    Number of Reflections(R-Free) 25
    Number of Reflections(R-Work) 399
    R-Factor(R-Work) 0.178
    R-Factor(R-Free) 0.244
    Percent Reflections(Observed) 99.531
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.45
    Shell Resolution(Low) 3.723
    Number of Reflections(R-Free) 14
    Number of Reflections(R-Work) 382
    R-Factor(R-Work) 0.2
    R-Factor(R-Free) 0.178
    Percent Reflections(Observed) 99.748
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.723
    Shell Resolution(Low) 4.072
    Number of Reflections(R-Free) 24
    Number of Reflections(R-Work) 353
    R-Factor(R-Work) 0.189
    R-Factor(R-Free) 0.201
    Percent Reflections(Observed) 99.472
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.072
    Shell Resolution(Low) 4.542
    Number of Reflections(R-Free) 17
    Number of Reflections(R-Work) 317
    R-Factor(R-Work) 0.166
    R-Factor(R-Free) 0.135
    Percent Reflections(Observed) 99.701
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.542
    Shell Resolution(Low) 5.224
    Number of Reflections(R-Free) 14
    Number of Reflections(R-Work) 282
    R-Factor(R-Work) 0.191
    R-Factor(R-Free) 0.225
    Percent Reflections(Observed) 99.663
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.224
    Shell Resolution(Low) 6.351
    Number of Reflections(R-Free) 8
    Number of Reflections(R-Work) 249
    R-Factor(R-Work) 0.183
    R-Factor(R-Free) 0.223
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 6.351
    Shell Resolution(Low) 8.786
    Number of Reflections(R-Free) 7
    Number of Reflections(R-Work) 196
    R-Factor(R-Work) 0.188
    R-Factor(R-Free) 0.192
    Percent Reflections(Observed) 99.024
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 8.786
    Shell Resolution(Low) 30.0
    Number of Reflections(R-Free) 8
    Number of Reflections(R-Work) 120
    R-Factor(R-Work) 0.193
    R-Factor(R-Free) 0.266
    Percent Reflections(Observed) 98.462
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.008
    r_chiral_restr 0.064
    r_dihedral_angle_4_deg 20.48
    r_dihedral_angle_3_deg 14.94
    r_dihedral_angle_2_deg 40.342
    r_dihedral_angle_1_deg 6.013
    r_angle_other_deg 1.16
    r_angle_refined_deg 1.359
    r_bond_other_d 0.003
    r_bond_refined_d 0.013
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 384
    Nucleic Acid Atoms 486
    Heterogen Atoms 5
    Solvent Atoms 23
     
     
  •   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