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X-RAY DIFFRACTION
Materials and Methods page
3M10
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 298.0
    Details 20 mg/mL protein, 26% PEG5000 MME, 0.1M MES, 0.1M (NH4)2SO4. Small crystals were used for macroseeding identical conditions, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 60.22 α = 90
    b = 90.43 β = 111.02
    c = 70.55 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 AREA DETECTOR
    Type ADSC QUANTUM 4
    Details Bent conical Si Mirror (Rh-coated)
    Collection Date 2001-09-27
     
    Diffraction Radiation
    Monochromator Bent Ge (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 14-BM-C
    Wavelength List 1.0
    Site APS
    Beamline 14-BM-C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.73
    Resolution(Low) 28.51
    Number Reflections(All) 69678
    Number Reflections(Observed) 65700
    Percent Possible(Observed) 94.6
    B(Isotropic) From Wilson Plot 17.63
    Redundancy 2.6
     
    High Resolution Shell Details
    Resolution(High) 1.73
    Resolution(Low) 1.77
    Percent Possible(All) 98.1
    Mean I Over Sigma(Observed) 2.11
    R-Sym I(Observed) 0.517
    Redundancy 2.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.727
    Resolution(Low) 26.618
    Cut-off Sigma(F) 0.02
    Number of Reflections(all) 73865
    Number of Reflections(Observed) 64403
    Number of Reflections(R-Free) 1866
    Percent Reflections(Observed) 87.19
    R-Factor(Observed) 0.1918
    R-Work 0.1903
    R-Free 0.2423
     
    Temperature Factor Modeling
    Mean Isotropic B Value 28.76
    Anisotropic B[1][1] -2.4468
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 5.7777
    Anisotropic B[2][2] -9.3262
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 11.7729
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7274
    Shell Resolution(Low) 1.7741
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 4153
    R-Factor(R-Work) 0.2566
    R-Factor(R-Free) 0.2911
    Percent Reflections(Observed) 76.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7741
    Shell Resolution(Low) 1.8263
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 4448
    R-Factor(R-Work) 0.2493
    R-Factor(R-Free) 0.3149
    Percent Reflections(Observed) 82.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8263
    Shell Resolution(Low) 1.8852
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 4425
    R-Factor(R-Work) 0.2432
    R-Factor(R-Free) 0.2857
    Percent Reflections(Observed) 80.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8852
    Shell Resolution(Low) 1.9526
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 4379
    R-Factor(R-Work) 0.3172
    R-Factor(R-Free) 0.3648
    Percent Reflections(Observed) 80.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9526
    Shell Resolution(Low) 2.0307
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 4879
    R-Factor(R-Work) 0.209
    R-Factor(R-Free) 0.257
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0307
    Shell Resolution(Low) 2.1231
    Number of Reflections(R-Free) 159
    Number of Reflections(R-Work) 5104
    R-Factor(R-Work) 0.1907
    R-Factor(R-Free) 0.2376
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1231
    Shell Resolution(Low) 2.235
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 5010
    R-Factor(R-Work) 0.1866
    R-Factor(R-Free) 0.2399
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.235
    Shell Resolution(Low) 2.3749
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 4775
    R-Factor(R-Work) 0.2116
    R-Factor(R-Free) 0.3101
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3749
    Shell Resolution(Low) 2.5582
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 5171
    R-Factor(R-Work) 0.1686
    R-Factor(R-Free) 0.1999
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5582
    Shell Resolution(Low) 2.8154
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 5172
    R-Factor(R-Work) 0.1725
    R-Factor(R-Free) 0.2378
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8154
    Shell Resolution(Low) 3.2222
    Number of Reflections(R-Free) 150
    Number of Reflections(R-Work) 5175
    R-Factor(R-Work) 0.1785
    R-Factor(R-Free) 0.2288
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2222
    Shell Resolution(Low) 4.0573
    Number of Reflections(R-Free) 154
    Number of Reflections(R-Work) 5013
    R-Factor(R-Work) 0.1566
    R-Factor(R-Free) 0.2222
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0573
    Shell Resolution(Low) 26.6213
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 4833
    R-Factor(R-Work) 0.1579
    R-Factor(R-Free) 0.1929
    Percent Reflections(Observed) 86.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.052
    f_dihedral_angle_d 15.198
    f_angle_d 0.803
    f_bond_d 0.004
     
    Coordinate Error
    Luzzati Sigma A(R-Free Set) 0.23
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5486
    Nucleic Acid Atoms 0
    Heterogen Atoms 10
    Solvent Atoms 960
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) Deice.py & DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement PHENIX (phenix.refine: 1.6_289)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.6_289)
    model building CNS
    data collection ADSC version: Quantum