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X-RAY DIFFRACTION
Materials and Methods page
4LVS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8
    Temperature 291.0
    Details 50mM Imidazole, 350mM NaCl, 17% PEG3350, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 54.98 α = 90
    b = 78.51 β = 113.24
    c = 55.14 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 300 mm CCD
    Details vertical focusing mirrors
    Collection Date 2012-10-07
     
    Diffraction Radiation
    Monochromator Rosenbaum-Rock double-crystal Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.00
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2
    Resolution(Low) 50
    Number Reflections(All) 29102
    Percent Possible(Observed) 93.0
    R Merge I(Observed) 0.058
    Redundancy 3.5
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.03
    Percent Possible(All) 97.8
    R Merge I(Observed) 0.405
    Redundancy 3.0
    Number Unique Reflections(All) 1433
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.002
    Resolution(Low) 39.674
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 48505
    Number of Reflections(R-Free) 2422
    Percent Reflections(Observed) 84.94
    R-Factor(Observed) 0.2191
    R-Work 0.2159
    R-Free 0.2806
     
    Temperature Factor Modeling
    Mean Isotropic B Value 39.4944
    Anisotropic B[1][1] -0.871
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 4.4423
    Anisotropic B[2][2] -2.7567
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 3.6276
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.04
    Number of Reflections(Observed) 2208
    Number of Reflections(R-Free) 110
    R-Factor(R-Work) 0.2891
    R-Factor(R-Free) 0.3415
    Percent Reflections(Observed) 68.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_bond_d 0.014
    f_angle_d 1.178
    f_chiral_restr 0.069
    f_plane_restr 0.004
    f_dihedral_angle_d 22.631
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2598
    Nucleic Acid Atoms 632
    Heterogen Atoms 38
    Solvent Atoms 165
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement Phaser
    data reduction HKL