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X-RAY DIFFRACTION
Materials and Methods page
3VQV
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.8
    Temperature 293.0
    Details Na/Cacodylate, MgCl2, PEG4000, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 104.88 α = 90
    b = 104.88 β = 90
    c = 70.43 γ = 120
     
    Space Group
    Space Group Name:    P 64
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 210
    Collection Date 2005-02-19
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type PHOTON FACTORY BEAMLINE AR-NW12A
    Wavelength List 1.0000
    Site PHOTON FACTORY
    Beamline AR-NW12A
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.9
    Resolution(Low) 50
    Number Reflections(Observed) 34806
    Percent Possible(Observed) 99.8
    Redundancy 8.0
     
    High Resolution Shell Details
    Resolution(High) 1.9
    Resolution(Low) 1.93
    Percent Possible(All) 99.5
    R-Sym I(Observed) 0.45
    Redundancy 4.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.9
    Resolution(Low) 42.07
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 33041
    Number of Reflections(R-Free) 1750
    Percent Reflections(Observed) 100.0
    R-Factor(Observed) 0.1882
    R-Work 0.18657
    R-Free 0.2191
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 38.945
    Anisotropic B[1][1] -0.7
    Anisotropic B[1][2] -0.35
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.7
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.05
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9
    Shell Resolution(Low) 1.949
    Number of Reflections(R-Free) 124
    Number of Reflections(R-Work) 2449
    R-Factor(R-Work) 0.307
    R-Factor(R-Free) 0.358
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.783
    r_scbond_it 2.925
    r_mcangle_it 2.08
    r_mcbond_it 1.186
    r_symmetry_hbond_refined 0.256
    r_bond_refined_d 0.017
    r_angle_refined_deg 1.706
    r_dihedral_angle_1_deg 6.095
    r_dihedral_angle_2_deg 33.637
    r_dihedral_angle_3_deg 17.916
    r_dihedral_angle_4_deg 20.486
    r_chiral_restr 0.12
    r_gen_planes_refined 0.007
    r_nbd_refined 0.225
    r_nbtor_refined 0.315
    r_xyhbond_nbd_refined 0.225
    r_symmetry_vdw_refined 0.228
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2095
    Nucleic Acid Atoms 0
    Heterogen Atoms 33
    Solvent Atoms 246
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.2.0019
     
    Software
    refinement REFMAC version: 5.2.0019
    model building MOLREP
    data collection HKL-2000