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X-RAY DIFFRACTION
Materials and Methods page
1YI4
  •   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 = 98.27 α = 90
    b = 98.27 β = 90
    c = 80.39 γ = 120
     
    Space Group
    Space Group Name:    P 65
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2002-09-02
     
    Diffraction Radiation
    Monochromator Double crystal Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 5.0.2
    Wavelength 1.1
    Wavelength List 1.1
    Site ALS
    Beamline 5.0.2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.4
    Resolution(Low) 19.56
    Number Reflections(All) 16430
    Number Reflections(Observed) 16430
    Percent Possible(Observed) 94.3
    R Merge I(Observed) 0.06
    Redundancy 5.19
     
    High Resolution Shell Details
    Resolution(High) 2.4
    Resolution(Low) 2.49
    Percent Possible(All) 96.1
    R Merge I(Observed) 0.361
    Mean I Over Sigma(Observed) 3.9
    Number Unique Reflections(All) 62
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.4
    Resolution(Low) 19.53
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 16420
    Number of Reflections(Observed) 16420
    Number of Reflections(R-Free) 1268
    Percent Reflections(Observed) 93.2
    R-Factor(All) 0.21
    R-Factor(Observed) 0.21
    R-Work 0.21
    R-Free 0.246
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 48.0
    Anisotropic B[1][1] 3.12
    Anisotropic B[1][2] 7.23
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.12
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -6.23
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4
    Shell Resolution(Low) 2.55
    Number of Reflections(R-Free) 193
    Number of Reflections(R-Work) 2496
    R-Factor(R-Work) 0.273
    R-Factor(R-Free) 0.306
    R-Free Error 0.022
    Percent Reflections(Observed) 93.8
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.73
    c_dihedral_angle_d 22.8
    c_angle_deg 1.3
    c_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2202
    Nucleic Acid Atoms 0
    Heterogen Atoms 19
    Solvent Atoms 81
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    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