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An Information Portal to 110790 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3UMC
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    Temperature 298.0
    Details 20% PEG3350, 0.2 M diammonium citrate, cryoprotectant: Paratone N, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 73.42 α = 90
    b = 123.87 β = 90.97
    c = 125.6 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2011-02
     
    Diffraction Radiation
    Monochromator Rosenbaum-Rock high-resolution double-crystal Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 19-ID
    Wavelength List 0.979
    Site APS
    Beamline 19-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.15
    Resolution(Low) 125.58
    Number Reflections(All) 60928
    Number Reflections(Observed) 60928
    Percent Possible(Observed) 99.9
    Redundancy 6.5
     
    High Resolution Shell Details
    Resolution(High) 2.15
    Resolution(Low) 2.27
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.301
    Mean I Over Sigma(Observed) 2.4
    R-Sym I(Observed) 0.301
    Redundancy 6.6
    Number Unique Reflections(All) 8872
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.15
    Resolution(Low) 28.377
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 59609
    Number of Reflections(R-Free) 3025
    Percent Reflections(Observed) 97.75
    R-Factor(Observed) 0.1927
    R-Work 0.1903
    R-Free 0.2361
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 30.4834
    Anisotropic B[1][1] -1.09
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.59
    Anisotropic B[2][2] 0.51
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.56
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.15
    Shell Resolution(Low) 2.206
    Number of Reflections(R-Free) 232
    Number of Reflections(R-Work) 4012
    R-Factor(R-Work) 0.233
    R-Factor(R-Free) 0.314
    Percent Reflections(Observed) 94.25
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.611
    r_scbond_it 3.142
    r_mcangle_it 2.022
    r_mcbond_other 0.271
    r_bond_refined_d 0.022
    r_bond_other_d 0.001
    r_angle_refined_deg 1.717
    r_angle_other_deg 1.013
    r_dihedral_angle_1_deg 6.75
    r_dihedral_angle_2_deg 37.931
    r_dihedral_angle_3_deg 16.374
    r_dihedral_angle_4_deg 14.421
    r_chiral_restr 0.111
    r_gen_planes_refined 0.009
    r_gen_planes_other 0.001
    r_mcbond_it 1.118
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 7401
    Nucleic Acid Atoms 0
    Heterogen Atoms 6
    Solvent Atoms 485
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution SOLVE
    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