POP-OUT | CLOSE
 
X-RAY DIFFRACTION
Materials and Methods page
2G5U
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 298.0
    Details Crystals of recombinant WT TTR were obtained from protein solutions at 5 mg/ml (in 100 mM KCl, 100 mM phosphate [pH 7.4], 1 M ammonium sulfate) equilibrated against 2 M ammonium sulfate in hanging drop experiments. The TTR ligand complexes were prepared from crystals soaked for 2 weeks with a 10-fold molar excess , pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 43.24 α = 90
    b = 85.84 β = 90
    c = 64.79 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 120
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MAC Science DIP-2030
    Collection Date 1999-06-07
     
    Diffraction Radiation
    Monochromator MIRRORS
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU
    Wavelength 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.8
    Resolution(Low) 27.52
    Number Reflections(All) 21209
    Number Reflections(Observed) 21209
    Percent Possible(Observed) 92.1
    R Merge I(Observed) 0.037
     
    High Resolution Shell Details
    Resolution(High) 1.8
    Resolution(Low) 1.86
    Percent Possible(All) 92.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 27.52
    Number of Reflections(all) 21209
    Number of Reflections(Observed) 21209
    Number of Reflections(R-Free) 1097
    Percent Reflections(Observed) 92.07
    R-Factor(All) 0.18199
    R-Factor(Observed) 0.18199
    R-Work 0.17998
    R-Free 0.21972
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 24.923
    Anisotropic B[1][1] 0.75
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.29
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.46
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8
    Shell Resolution(Low) 1.847
    Number of Reflections(R-Free) 74
    Number of Reflections(R-Work) 1477
    R-Factor(R-Work) 0.253
    R-Factor(R-Free) 0.264
    Percent Reflections(Observed) 92.76
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.283
    r_scbond_it 3.516
    r_mcangle_it 2.124
    r_mcbond_it 1.466
    r_nbd_refined 0.218
    r_gen_planes_refined 0.006
    r_chiral_restr 0.104
    r_dihedral_angle_4_deg 17.212
    r_dihedral_angle_3_deg 14.674
    r_dihedral_angle_2_deg 35.303
    r_dihedral_angle_1_deg 5.365
    r_angle_refined_deg 1.497
    r_bond_refined_d 0.014
    r_nbtor_refined 0.313
    r_xyhbond_nbd_refined 0.2
    r_symmetry_vdw_refined 0.26
    r_symmetry_hbond_refined 0.311
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1750
    Nucleic Acid Atoms 0
    Heterogen Atoms 36
    Solvent Atoms 120
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005
    model building AMORE
    data reduction SCALEPACK