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X-RAY DIFFRACTION
Materials and Methods page
2F35
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.9
    Temperature 293.0
    Details 20% PEG 1K 100 mM Tris 5 mM UBP302, pH 8.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 97.88 α = 90
    b = 97.91 β = 90
    c = 128.35 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 IMAGE PLATE
    Type MARRESEARCH
    Details Confocal mirrors
    Collection Date 2005-08-28
     
    Diffraction Radiation
    Monochromator Multilayer confocal mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-002
    Wavelength 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 1.86
    Resolution(Low) 40
    Number Reflections(All) 52211
    Number Reflections(Observed) 52211
    Percent Possible(Observed) 98.6
    R Merge I(Observed) 0.057
    B(Isotropic) From Wilson Plot 28.08
    Redundancy 7.1
     
    High Resolution Shell Details
    Resolution(High) 1.86
    Resolution(Low) 1.93
    Percent Possible(All) 85.7
    R Merge I(Observed) 0.43
    Redundancy 6.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.87
    Resolution(Low) 38.92
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 48777
    Number of Reflections(Observed) 48777
    Number of Reflections(R-Free) 2595
    Percent Reflections(Observed) 99.8
    R-Factor(All) 0.19273
    R-Factor(Observed) 0.19273
    R-Work 0.19125
    R-Free 0.22036
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 18.676
    Anisotropic B[1][1] 0.27
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.07
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.21
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.866
    Shell Resolution(Low) 1.915
    Number of Reflections(R-Free) 205
    Number of Reflections(R-Work) 3476
    R-Factor(R-Work) 0.275
    R-Factor(R-Free) 0.344
    Percent Reflections(Observed) 97.43
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.574
    r_scbond_it 1.161
    r_mcangle_it 1.554
    r_mcbond_it 1.034
    r_nbd_refined 0.242
    r_gen_planes_refined 0.006
    r_chiral_restr 0.114
    r_dihedral_angle_4_deg 11.973
    r_dihedral_angle_3_deg 9.931
    r_dihedral_angle_2_deg 26.35
    r_dihedral_angle_1_deg 2.542
    r_angle_refined_deg 1.457
    r_bond_refined_d 0.012
    r_nbtor_refined 0.321
    r_xyhbond_nbd_refined 0.208
    r_symmetry_vdw_refined 0.306
    r_symmetry_hbond_refined 0.288
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4014
    Nucleic Acid Atoms 0
    Heterogen Atoms 82
    Solvent Atoms 416
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005