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X-RAY DIFFRACTION
Materials and Methods page
1JYR
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 291.0
    Details ammonium phosphate, PEG400, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 50.8 α = 90
    b = 50.8 β = 90
    c = 89.44 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 290
     
    Diffraction Detector
    Collection Date 1999-06-21
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type EMBL/DESY, HAMBURG BEAMLINE X31
    Wavelength List 1.057
    Site EMBL/DESY, HAMBURG
    Beamline X31
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.55
    Number Reflections(All) 17213
    Number Reflections(Observed) 17122
    Percent Possible(Observed) 99.7
    B(Isotropic) From Wilson Plot 18.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.55
    Resolution(Low) 8.0
    Cut-off Sigma(F) 2.0
    Number of Reflections(Observed) 17119
    Number of Reflections(R-Free) 993
    Percent Reflections(Observed) 97.6
    R-Work 0.19
    R-Free 0.228
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 19.6
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.55
    Shell Resolution(Low) 1.65
    Number of Reflections(R-Free) 156
    Number of Reflections(R-Work) 2576
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.301
    R-Free Error 0.024
    Percent Reflections(Observed) 95.7
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.35
    c_scbond_it 2.25
    c_mcangle_it 2.84
    c_mcbond_it 1.8
    c_improper_angle_d 2.03
    c_bond_d 0.035
    c_angle_deg 2.9
    c_dihedral_angle_d 25.7
     
    Coordinate Error
    Luzzati ESD(Observed) 0.16
    Luzzati Sigma A(Observed) 0.12
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.2
    Luzzati Sigma A(R-Free Set) 0.14
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 857
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 90
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building AMoRE