POP-OUT | CLOSE
 
X-RAY DIFFRACTION
Materials and Methods page
3CFN
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 291.0
    Details mother liquor: 100 mM Tris, pH 7.5, 100 mM KCl, 20 % v/v PEG 400; drop consisting of 1 uL mother liquor and 1 uL wtTTR 10 mg/mL; crystals appeared in about 5 days; complex obtained by soaking in mother liquor supplemented with saturating amount of ligand., VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 43.3 α = 90
    b = 86.5 β = 90
    c = 63.46 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MAR scanner 345 mm plate
    Details Osmic
    Collection Date 2005-06-01
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU ULTRAX 18
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.87
    Resolution(Low) 51.17
    Number Reflections(All) 19713
    Number Reflections(Observed) 19329
    Percent Possible(Observed) 93.5
    R Merge I(Observed) 0.043
    B(Isotropic) From Wilson Plot 17.7
    Redundancy 7.2
     
    High Resolution Shell Details
    Resolution(High) 1.87
    Resolution(Low) 1.96
    Percent Possible(All) 79.8
    R Merge I(Observed) 0.184
    Mean I Over Sigma(Observed) 4.1
    R-Sym I(Observed) 0.184
    Redundancy 6.9
    Number Unique Reflections(All) 2361
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.87
    Resolution(Low) 26.25
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 19713
    Number of Reflections(Observed) 19297
    Number of Reflections(R-Free) 994
    Percent Reflections(Observed) 94.87
    R-Factor(All) 0.203
    R-Factor(Observed) 0.203
    R-Work 0.2
    R-Free 0.245
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 17.107
    Anisotropic B[1][1] -0.04
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.01
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.87
    Shell Resolution(Low) 1.918
    Number of Reflections(R-Free) 67
    Number of Reflections(R-Work) 1238
    R-Factor(R-Work) 0.22
    R-Factor(R-Free) 0.27
    Percent Reflections(Observed) 88.53
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 1.522
    r_scbond_it 0.985
    r_mcangle_it 0.862
    r_mcbond_it 0.481
    r_symmetry_hbond_refined 0.131
    r_bond_refined_d 0.007
    r_angle_refined_deg 1.08
    r_dihedral_angle_1_deg 5.657
    r_dihedral_angle_2_deg 31.38
    r_dihedral_angle_3_deg 13.654
    r_dihedral_angle_4_deg 14.584
    r_chiral_restr 0.069
    r_gen_planes_refined 0.003
    r_nbd_refined 0.195
    r_nbtor_refined 0.305
    r_xyhbond_nbd_refined 0.123
    r_symmetry_vdw_refined 0.183
     
    Coordinate Error
    Luzzati ESD(Observed) 0.064
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1778
    Nucleic Acid Atoms 0
    Heterogen Atoms 42
    Solvent Atoms 199
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    data extraction pdb_extract version: 3.004
    refinement REFMAC5
    molecular replacement MOLREP
    data processing SCALA
    collection/data indexing Mosflm