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X-RAY DIFFRACTION
Materials and Methods page
2F34
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.6
    Temperature 293.0
    Details 17-22% PEG 1K 100mM TRIS 5mM UBP310, pH 8.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 97.7 α = 90
    b = 97.95 β = 90
    c = 129.13 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2005-08-11
     
    Diffraction Radiation
    Monochromator Double Crystal Si-220
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.00000
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.74
    Resolution(Low) 40
    Number Reflections(All) 64151
    Number Reflections(Observed) 64151
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.038
    B(Isotropic) From Wilson Plot 25.16
    Redundancy 4.9
     
    High Resolution Shell Details
    Resolution(High) 1.74
    Resolution(Low) 1.8
    Percent Possible(All) 99.7
    R Merge I(Observed) 0.441
    Mean I Over Sigma(Observed) 3.38
    Redundancy 4.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.74
    Resolution(Low) 33.41
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 60378
    Number of Reflections(Observed) 60378
    Number of Reflections(R-Free) 3218
    Percent Reflections(Observed) 99.92
    R-Factor(All) 0.18255
    R-Factor(Observed) 0.18255
    R-Work 0.18103
    R-Free 0.21135
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 19.284
    Anisotropic B[1][1] 0.26
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.21
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.47
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.74
    Shell Resolution(Low) 1.785
    Number of Reflections(R-Free) 265
    Number of Reflections(R-Work) 4373
    R-Factor(R-Work) 0.21
    R-Factor(R-Free) 0.252
    Percent Reflections(Observed) 99.76
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.876
    r_scbond_it 1.33
    r_mcangle_it 1.718
    r_mcbond_it 1.123
    r_nbd_refined 0.262
    r_gen_planes_refined 0.007
    r_chiral_restr 0.124
    r_dihedral_angle_4_deg 13.203
    r_dihedral_angle_3_deg 10.626
    r_dihedral_angle_2_deg 26.879
    r_dihedral_angle_1_deg 2.762
    r_angle_refined_deg 1.661
    r_bond_refined_d 0.014
    r_nbtor_refined 0.32
    r_xyhbond_nbd_refined 0.228
    r_symmetry_vdw_refined 0.276
    r_symmetry_hbond_refined 0.227
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4014
    Nucleic Acid Atoms 0
    Heterogen Atoms 82
    Solvent Atoms 482
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005