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X-RAY DIFFRACTION
Materials and Methods page
3UPZ
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, sitting drop
    pH 7.5
    Temperature 298.0
    Details 24% PEG 3350, 0.250 M ammonium citrate, 5 mM DTT, 2.3 mM UW1243, pH 7.5, vapor diffusion, sitting drop, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.27 α = 90
    b = 72.79 β = 103.49
    c = 67.29 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Collection Date 2011-02-16
     
    Diffraction Radiation
    Monochromator Side scattering bent cube-root I-beam single crystal; asymmetric cut 4.965 degs.
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL9-2
    Wavelength List 0.97945
    Site SSRL
    Beamline BL9-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.2
    Resolution(Low) 37.16
    Number Reflections(All) 22898
    Number Reflections(Observed) 22898
    Percent Possible(Observed) 99.1
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 2.2
    Resolution(Low) 2.32
    Percent Possible(All) 93.6
    R Merge I(Observed) 0.498
    Mean I Over Sigma(Observed) 1.3
    R-Sym I(Observed) 0.498
    Redundancy 3.7
    Number Unique Reflections(All) 3116
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 37.16
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 22879
    Number of Reflections(R-Free) 1171
    Percent Reflections(Observed) 99.03
    R-Factor(Observed) 0.1941
    R-Work 0.191
    R-Free 0.251
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 53.7697
    Anisotropic B[1][1] 0.07
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.49
    Anisotropic B[2][2] -1.94
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.57
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2
    Shell Resolution(Low) 2.257
    Number of Reflections(R-Free) 79
    Number of Reflections(R-Work) 1379
    R-Factor(R-Work) 0.293
    R-Factor(R-Free) 0.296
    Percent Reflections(Observed) 89.12
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.003
    r_chiral_restr 0.051
    r_dihedral_angle_4_deg 10.082
    r_dihedral_angle_3_deg 13.597
    r_dihedral_angle_2_deg 35.305
    r_dihedral_angle_1_deg 4.43
    r_angle_other_deg 0.761
    r_angle_refined_deg 0.89
    r_bond_other_d 0.001
    r_bond_refined_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3659
    Nucleic Acid Atoms 0
    Heterogen Atoms 17
    Solvent Atoms 65
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    data reduction SCALA version: 3.3.16