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X-RAY DIFFRACTION
Materials and Methods page
3UMB
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6
    Temperature 298.0
    Details 15% isopropanol, 0.1 M potassium chloride, 25 mM magnesium chloride, 2% 1,4-dioxane, 50 mM sodium cacodylate, pH 6.0, cryoprotectant: Paratone N, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 66.38 α = 90
    b = 129.57 β = 90
    c = 54.3 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RIGAKU
    Details Varimax optics
    Collection Date 2010-05
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU FR-E+ SUPERBRIGHT
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.2
    Resolution(Low) 64.79
    Number Reflections(All) 12258
    Number Reflections(Observed) 12258
    Percent Possible(Observed) 99.9
    Redundancy 7.0
     
    High Resolution Shell Details
    Resolution(High) 2.2
    Resolution(Low) 2.32
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.214
    Mean I Over Sigma(Observed) 3.5
    R-Sym I(Observed) 0.214
    Redundancy 7.0
    Number Unique Reflections(All) 1754
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 24.67
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 12255
    Number of Reflections(R-Free) 585
    Percent Reflections(Observed) 99.85
    R-Factor(Observed) 0.2328
    R-Work 0.2302
    R-Free 0.2828
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 33.9067
    Anisotropic B[1][1] 0.82
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.53
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.71
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2
    Shell Resolution(Low) 2.257
    Number of Reflections(R-Free) 42
    Number of Reflections(R-Work) 840
    R-Factor(R-Work) 0.332
    R-Factor(R-Free) 0.406
    Percent Reflections(Observed) 99.89
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.377
    r_scbond_it 2.282
    r_mcangle_it 1.573
    r_mcbond_other 0.166
    r_bond_refined_d 0.018
    r_bond_other_d 0.001
    r_angle_refined_deg 1.609
    r_angle_other_deg 0.978
    r_dihedral_angle_1_deg 6.821
    r_dihedral_angle_2_deg 34.694
    r_dihedral_angle_3_deg 16.82
    r_dihedral_angle_4_deg 15.977
    r_chiral_restr 0.094
    r_gen_planes_refined 0.007
    r_gen_planes_other 0.001
    r_mcbond_it 0.855
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1751
    Nucleic Acid Atoms 0
    Heterogen Atoms 8
    Solvent Atoms 69
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution Molrep
    Structure Refinement REFMAC 5.5.0102
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5 version: 5.5.0102
    data reduction SCALA version: 3.3.15