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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1JX2
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 277.0
    Details PEG 8000, Tris, potassium chloride, magnesium chloride, glucose, methyl-propane-diol, dithiothreitol, EGTA, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 54.45 α = 90
    b = 62.04 β = 94.79
    c = 181.2 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector AREA DETECTOR
    Type MARRESEARCH
    Collection Date 2000-10-13
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ELETTRA BEAMLINE 5.2R
    Wavelength List 1.000
    Site ELETTRA
    Beamline 5.2R
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.3
    Resolution(Low) 15
    Number Reflections(Observed) 52742
    Percent Possible(Observed) 97.9
    R Merge I(Observed) 0.067
    B(Isotropic) From Wilson Plot 22.6
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 2.3
    Resolution(Low) 2.4
    Percent Possible(All) 94.6
    R Merge I(Observed) 0.22
    Mean I Over Sigma(Observed) 4.98
    R-Sym I(Observed) 0.215
    Redundancy 3.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.3
    Resolution(Low) 14.96
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 52742
    Number of Reflections(R-Free) 3692
    Percent Reflections(Observed) 98.1
    R-Factor(Observed) 0.197
    R-Work 0.197
    R-Free 0.255
    R-Free Selection Details EVERY-NTH
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 38.9
    Anisotropic B[1][1] 0.63
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.24
    Anisotropic B[2][2] -1.61
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.98
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3
    Shell Resolution(Low) 2.44
    Number of Reflections(R-Free) 593
    Number of Reflections(R-Work) 7879
    R-Factor(R-Work) 0.223
    R-Factor(R-Free) 0.298
    R-Free Error 0.012
    Percent Reflections(Observed) 95.8
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.78
    c_bond_d 0.008
    c_angle_deg 1.2
    c_dihedral_angle_d 22.2
     
    Coordinate Error
    Luzzati ESD(Observed) 0.25
    Luzzati Sigma A(Observed) 0.18
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.34
    Luzzati Sigma A(R-Free Set) 0.28
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 8297
    Nucleic Acid Atoms 0
    Heterogen Atoms 40
    Solvent Atoms 376
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MAR
    Data Reduction (data scaling) XDS
    Structure Solution CNS
    Structure Refinement CNS 1.0
     
    Software
    refinement CNS version: 1.0
    model building CNS