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X-RAY DIFFRACTION
Materials and Methods page
1YI3
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.5
    Temperature 298.0
    Details ammonium phosphate, citrate buffer, NaCl, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 97.65 α = 90
    b = 97.65 β = 90
    c = 80.72 γ = 120
     
    Space Group
    Space Group Name:    P 65
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS IV
    Collection Date 2001-01-01
     
    Diffraction Radiation
    Monochromator Osmic mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RU200
    Wavelength List 1.54
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.5
    Resolution(Low) 19.47
    Number Reflections(All) 14445
    Number Reflections(Observed) 14445
    Percent Possible(Observed) 94.9
    R Merge I(Observed) 0.072
    Redundancy 3.05
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.59
    Percent Possible(All) 87.6
    R Merge I(Observed) 0.336
    Mean I Over Sigma(Observed) 2.6
    Number Unique Reflections(All) 749
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.5
    Resolution(Low) 19.46
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 14303
    Number of Reflections(Observed) 14303
    Number of Reflections(R-Free) 1097
    Percent Reflections(Observed) 93.4
    R-Factor(All) 0.208
    R-Factor(Observed) 0.208
    R-Work 0.208
    R-Free 0.259
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 38.0
    Anisotropic B[1][1] 5.25
    Anisotropic B[1][2] 7.8
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 5.25
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -10.49
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.66
    Number of Reflections(R-Free) 166
    Number of Reflections(R-Work) 1979
    R-Factor(R-Work) 0.336
    R-Factor(R-Free) 0.341
    R-Free Error 0.026
    Percent Reflections(Observed) 85.3
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.72
    c_dihedral_angle_d 22.2
    c_angle_deg 1.2
    c_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2202
    Nucleic Acid Atoms 0
    Heterogen Atoms 23
    Solvent Atoms 134
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) R-AXIS
    Data Reduction (data scaling) D*TREK
    Structure Solution AMORE
    Structure Refinement CNS
     
    Software
    data extraction pdb_extract version: 1.501
    refinement CNS
    data processing D*trek version: 8.0SSI