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X-RAY DIFFRACTION
Materials and Methods page
3VAG
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 277.0
    Details 1.6M Ammonium sulfate, 10% Dioxane, 0.1M MES pH 6.5, Deoxy-Big Chap, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 166.82 α = 90
    b = 37.5 β = 125.35
    c = 100.93 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 ADSC QUANTUM 210
    Collection Date 2007-06-25
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CHESS BEAMLINE A1
    Wavelength List 0.987
    Site CHESS
    Beamline A1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -1.0
    Resolution(High) 2.19
    Resolution(Low) 50
    Number Reflections(Observed) 26702
    Percent Possible(Observed) 99.3
    R Merge I(Observed) 0.098
    Redundancy 5.3
     
    High Resolution Shell Details
    Resolution(High) 2.19
    Resolution(Low) 2.27
    Percent Possible(All) 94.6
    R Merge I(Observed) 0.441
    Redundancy 4.0
    Number Unique Reflections(All) 2473
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 2.19
    Resolution(Low) 41.88
    Number of Reflections(all) 25547
    Number of Reflections(Observed) 23012
    Number of Reflections(R-Free) 2535
    Percent Reflections(Observed) 95.41
    R-Factor(Observed) 0.19525
    R-Work 0.1913
    R-Free 0.23221
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 41.296
    Anisotropic B[1][1] -1.24
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.79
    Anisotropic B[2][2] -0.46
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.6
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.19
    Shell Resolution(Low) 2.247
    Number of Reflections(R-Free) 173
    Number of Reflections(R-Work) 1474
    R-Factor(R-Work) 0.223
    R-Factor(R-Free) 0.28
    Percent Reflections(Observed) 84.98
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.95
    r_scbond_it 1.204
    r_mcangle_it 0.687
    r_mcbond_other 0.082
    r_mcbond_it 0.61
    r_nbd_refined 0.177
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.003
    r_chiral_restr 0.066
    r_dihedral_angle_4_deg 11.511
    r_dihedral_angle_3_deg 14.15
    r_dihedral_angle_2_deg 34.081
    r_dihedral_angle_1_deg 5.19
    r_angle_other_deg 0.891
    r_angle_refined_deg 1.207
    r_bond_other_d 0.001
    r_bond_refined_d 0.009
    r_nbd_other 0.177
    r_nbtor_refined 0.174
    r_nbtor_other 0.079
    r_xyhbond_nbd_refined 0.159
    r_symmetry_vdw_refined 0.192
    r_symmetry_vdw_other 0.278
    r_symmetry_hbond_refined 0.11
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2686
    Nucleic Acid Atoms 224
    Heterogen Atoms 110
    Solvent Atoms 156
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    data collection HKL-2000