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X-RAY DIFFRACTION
Materials and Methods page
2VA6
  •   Crystallization Hide
    Crystallization Experiments
    Details 20-22.5% (W/V) PEG 5000 MONOMETHYLETHYL (MME), 200 MM SODIUM CITRATE (PH 6.6) AND 200 MM AMMONIUM IODIDE
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 102.97 α = 90
    b = 102.97 β = 90
    c = 167.28 γ = 120
     
    Space Group
    Space Group Name:    P 61 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-2
    Wavelength 0.933
    Site ESRF
    Beamline ID14-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.5
    Resolution(Low) 47
    Number Reflections(Observed) 17850
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.07
    Redundancy 2.5
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.56
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.5
    Resolution(Low) 47.28
    Number of Reflections(Observed) 17805
    Number of Reflections(R-Free) 964
    Percent Reflections(Observed) 99.8
    R-Factor(Observed) 0.228
    R-Work 0.224
    R-Free 0.289
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 39.45
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5
    Shell Resolution(Low) 2.56
    Number of Reflections(R-Free) 86
    Number of Reflections(R-Work) 1261
    R-Factor(R-Work) 0.297
    R-Factor(R-Free) 0.385
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 0.095
    r_scbond_it 0.072
    r_mcangle_it 0.076
    r_mcbond_it 0.051
    r_nbd_refined 0.217
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.005
    r_chiral_restr 0.088
    r_dihedral_angle_4_deg 16.734
    r_dihedral_angle_3_deg 16.191
    r_dihedral_angle_2_deg 35.808
    r_dihedral_angle_1_deg 8.205
    r_angle_other_deg 0.903
    r_angle_refined_deg 1.48
    r_bond_other_d 0.001
    r_bond_refined_d 0.013
    r_nbd_other 0.21
    r_nbtor_refined 0.191
    r_nbtor_other 0.09
    r_xyhbond_nbd_refined 0.144
    r_symmetry_vdw_refined 0.178
    r_symmetry_vdw_other 0.222
    r_symmetry_hbond_refined 0.067
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2961
    Nucleic Acid Atoms 0
    Heterogen Atoms 27
    Solvent Atoms 88
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution C-SEARCH
    Structure Refinement REFMAC 5.2.0019G
     
    Software
    refinement REFMAC version: 5.2.0019G
    model building C-SEARCH