POP-OUT | CLOSE

An Information Portal to 108263 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
3VY9
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 293.0
    Details 30% Jeffamine M600, 50mM CsCl, 0.1M MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 144.21 α = 90
    b = 144.21 β = 90
    c = 106.41 γ = 120
     
    Space Group
    Space Group Name:    H 3 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2011-07-12
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type BESSY BEAMLINE 14.1
    Wavelength List 0.918
    Site BESSY
    Beamline 14.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 10.3
    Observed Criterion Sigma(I) 1.86
    Resolution(High) 2.63
    Resolution(Low) 81
    Number Reflections(Observed) 11968
    Percent Possible(Observed) 94.3
     
    High Resolution Shell Details
    Resolution(High) 2.63
    Resolution(Low) 2.7
    Percent Possible(All) 76.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.63
    Resolution(Low) 50.0
    Cut-off Sigma(F) 10.3
    Number of Reflections(Observed) 10770
    Number of Reflections(R-Free) 1192
    Percent Reflections(Observed) 93.74
    R-Factor(All) 0.23988
    R-Factor(Observed) 0.23988
    R-Work 0.23538
    R-Free 0.28067
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 51.341
    Anisotropic B[1][1] 0.05
    Anisotropic B[1][2] 0.03
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.632
    Shell Resolution(Low) 2.7
    Number of Reflections(R-Free) 70
    Number of Reflections(R-Work) 599
    R-Factor(R-Work) 0.342
    R-Factor(R-Free) 0.342
    Percent Reflections(Observed) 71.32
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.008
    r_chiral_restr 0.101
    r_dihedral_angle_4_deg 22.638
    r_dihedral_angle_3_deg 24.153
    r_dihedral_angle_2_deg 35.307
    r_dihedral_angle_1_deg 7.692
    r_angle_refined_deg 1.908
    r_bond_refined_d 0.017
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2593
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 12
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASES
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASES
    data collection HKL-2000