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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2XDO
  •   Crystallization Hide
    Crystallization Experiments
    Details 1.5 M AMMONIUM SULFATE, 0.1 M SODIUM CITRATE PH 7
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 68.11 α = 111
    b = 80.27 β = 90.23
    c = 86.89 γ = 93.43
     
    Space Group
    Space Group Name:    P 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2011-11-13
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type BESSY BEAMLINE 14.3
    Wavelength 0.918
    Site BESSY
    Beamline 14.3
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.09
    Resolution(Low) 49.06
    Number Reflections(Observed) 91733
    Percent Possible(Observed) 92.2
    R Merge I(Observed) 0.06
    Redundancy 2.2
     
    High Resolution Shell Details
    Resolution(High) 2.09
    Resolution(Low) 2.2
    Percent Possible(All) 64.0
    R Merge I(Observed) 0.36
    Mean I Over Sigma(Observed) 2.0
    Redundancy 2.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.09
    Resolution(Low) 40.54
    Number of Reflections(Observed) 87111
    Number of Reflections(R-Free) 4607
    Percent Reflections(Observed) 90.46
    R-Factor(Observed) 0.19192
    R-Work 0.1899
    R-Free 0.22993
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 39.78
    Anisotropic B[1][1] 0.83
    Anisotropic B[1][2] -0.86
    Anisotropic B[1][3] 0.11
    Anisotropic B[2][2] -0.13
    Anisotropic B[2][3] -0.37
    Anisotropic B[3][3] -1.06
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.091
    Shell Resolution(Low) 2.145
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 3056
    R-Factor(R-Work) 0.258
    R-Factor(R-Free) 0.284
    Percent Reflections(Observed) 42.69
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.438
    r_scbond_it 2.813
    r_mcangle_it 1.655
    r_mcbond_it 0.904
    r_gen_planes_refined 0.01
    r_chiral_restr 0.149
    r_dihedral_angle_4_deg 15.696
    r_dihedral_angle_3_deg 16.926
    r_dihedral_angle_2_deg 39.218
    r_dihedral_angle_1_deg 8.065
    r_angle_refined_deg 2.067
    r_bond_refined_d 0.023
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 11335
    Nucleic Acid Atoms 0
    Heterogen Atoms 277
    Solvent Atoms 571
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0110
     
    Software
    refinement REFMAC version: 5.5.0110
    model building PHASER