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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DUK
  •   Crystallization Hide
    Crystallization Experiments
    Method Counter diffusion
    Temperature 273.0
    Details Counter diffusion, temperature 273K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 157.94 α = 90
    b = 157.94 β = 90
    c = 104.44 γ = 120
     
    Space Group
    Space Group Name:    P 63 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2011-10-09
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL41XU
    Wavelength List 0.8
    Site SPRING-8
    Beamline BL41XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.57
    Resolution(Low) 30
    Number Reflections(All) 103675
    Number Reflections(Observed) 101808
    Percent Possible(Observed) 98.2
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.57
    Resolution(Low) 10.0
    Number of Reflections(Observed) 98844
    Number of Reflections(R-Free) 5203
    Percent Reflections(Observed) 98.2
    R-Factor(Observed) 0.15173
    R-Work 0.15091
    R-Free 0.1672
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 15.759
    Anisotropic B[1][1] -0.52
    Anisotropic B[1][2] -0.26
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.52
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.79
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.57
    Shell Resolution(Low) 1.613
    Number of Reflections(R-Free) 372
    Number of Reflections(R-Work) 6447
    R-Factor(R-Work) 0.287
    R-Factor(R-Free) 0.3
    Percent Reflections(Observed) 94.96
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 11.462
    r_sphericity_free 23.14
    r_rigid_bond_restr 1.405
    r_gen_planes_refined 0.005
    r_chiral_restr 0.08
    r_dihedral_angle_4_deg 14.167
    r_dihedral_angle_3_deg 11.088
    r_dihedral_angle_2_deg 29.669
    r_dihedral_angle_1_deg 5.892
    r_angle_refined_deg 1.125
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2581
    Nucleic Acid Atoms 0
    Heterogen Atoms 174
    Solvent Atoms 300
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER
    data collection HKL-2000