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X-RAY DIFFRACTION
Materials and Methods page
3V51
  •   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 RM-1-176, pH 7.5, vapor diffusion, sitting drop, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.32 α = 90
    b = 72.62 β = 103.9
    c = 67.36 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 DECTRIS PILATUS 6M
    Collection Date 2010-12-10
     
    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 BL12-2
    Wavelength List 0.97945
    Site SSRL
    Beamline BL12-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.95
    Resolution(Low) 39.4
    Number Reflections(All) 32294
    Number Reflections(Observed) 32294
    Percent Possible(Observed) 97.6
    Redundancy 4.2
     
    High Resolution Shell Details
    Resolution(High) 1.95
    Resolution(Low) 2.05
    Percent Possible(All) 93.0
    R Merge I(Observed) 0.673
    Mean I Over Sigma(Observed) 1.1
    R-Sym I(Observed) 0.673
    Redundancy 4.0
    Number Unique Reflections(All) 4466
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.95
    Resolution(Low) 37.23
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 32270
    Number of Reflections(R-Free) 1664
    Percent Reflections(Observed) 97.32
    R-Factor(Observed) 0.1985
    R-Work 0.1965
    R-Free 0.2341
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 36.7158
    Anisotropic B[1][1] 0.34
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.74
    Anisotropic B[2][2] -0.09
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.11
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.948
    Shell Resolution(Low) 1.998
    Number of Reflections(R-Free) 108
    Number of Reflections(R-Work) 1963
    R-Factor(R-Work) 0.34
    R-Factor(R-Free) 0.376
    Percent Reflections(Observed) 86.54
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.004
    r_chiral_restr 0.07
    r_dihedral_angle_4_deg 17.719
    r_dihedral_angle_3_deg 14.338
    r_dihedral_angle_2_deg 36.93
    r_dihedral_angle_1_deg 5.088
    r_angle_other_deg 0.844
    r_angle_refined_deg 1.205
    r_bond_other_d 0.001
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3654
    Nucleic Acid Atoms 0
    Heterogen Atoms 32
    Solvent Atoms 76
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BLU-ICE
    Data Reduction (intensity integration) XSCALE
    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