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X-RAY DIFFRACTION
Materials and Methods page
4DN3
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.5
    Temperature 293.0
    Details 4.3 M SODIUM FORMATE CRYO VAPOR DIFFUSION, SITTING DROP, temperature 293K, pH 7.5
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 121.54 α = 90
    b = 121.54 β = 90
    c = 84.23 γ = 90
     
    Space Group
    Space Group Name:    I 4
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RIGAKU SATURN 944
    Details MIRRORS
    Collection Date 2006-05-16
     
    Diffraction Radiation
    Monochromator GRAPHITE
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007 HF
    Wavelength 1.5418
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.6
    Resolution(Low) 30
    Number Reflections(All) 18826
    Number Reflections(Observed) 18826
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.069
    B(Isotropic) From Wilson Plot 39.9
    Redundancy 7.5
     
    High Resolution Shell Details
    Resolution(High) 2.6
    Resolution(Low) 2.67
    Percent Possible(All) 98.4
    R Merge I(Observed) 0.455
    Redundancy 7.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.6
    Resolution(Low) 15.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 17765
    Number of Reflections(Observed) 17765
    Number of Reflections(R-Free) 965
    Percent Reflections(Observed) 94.8
    R-Factor(All) 0.19364
    R-Factor(Observed) 0.19364
    R-Work 0.19057
    R-Free 0.24912
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 50.9
    Anisotropic B[1][1] -1.21
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.21
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.42
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.606
    Shell Resolution(Low) 2.671
    Number of Reflections(R-Free) 60
    Number of Reflections(R-Work) 1272
    R-Factor(R-Work) 0.314
    R-Factor(R-Free) 0.372
    Percent Reflections(Observed) 98.4
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 39.058
    r_scbond_it 44.528
    r_mcangle_it 5.318
    r_mcbond_it 2.76
    r_gen_planes_refined 0.0
    r_chiral_restr 0.085
    r_dihedral_angle_4_deg 11.648
    r_dihedral_angle_3_deg 16.488
    r_dihedral_angle_2_deg 37.638
    r_dihedral_angle_1_deg 6.566
    r_angle_refined_deg 1.304
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3208
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 130
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building MOLREP
    data collection CrystalClear