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X-RAY DIFFRACTION
Materials and Methods page
3VQD
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 295.0
    Details 1.6M AmSO4, 0.1M Na Citrate pH 5.6, 50mM CdCl2, VAPOR DIFFUSION, HANGING DROP, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.86 α = 90
    b = 60.34 β = 90
    c = 81.92 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Details mirror
    Collection Date 2007-02-27
     
    Diffraction Radiation
    Monochromator double mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 23-ID-B
    Wavelength List 1.00
    Site APS
    Beamline 23-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Resolution(High) 2
    Resolution(Low) 48.56
    Number Reflections(All) 20686
    Number Reflections(Observed) 20665
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.083
    Redundancy 6.9
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.11
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.4
    Mean I Over Sigma(Observed) 4.5
    R-Sym I(Observed) 0.433
    Redundancy 7.0
    Number Unique Reflections(All) 2953
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 40.96
    Number of Reflections(all) 19596
    Number of Reflections(Observed) 19549
    Number of Reflections(R-Free) 1051
    Percent Reflections(Observed) 99.76
    R-Factor(All) 0.2005
    R-Factor(Observed) 0.20298
    R-Work 0.20048
    R-Free 0.25065
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 32.802
    Anisotropic B[1][1] -0.45
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 2.6
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.15
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.052
    Number of Reflections(R-Free) 73
    Number of Reflections(R-Work) 1279
    R-Factor(R-Work) 0.254
    R-Factor(R-Free) 0.363
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.01
    r_chiral_restr 0.154
    r_dihedral_angle_4_deg 17.455
    r_dihedral_angle_3_deg 18.979
    r_dihedral_angle_2_deg 33.984
    r_dihedral_angle_1_deg 6.746
    r_angle_refined_deg 2.015
    r_bond_refined_d 0.019
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2152
    Nucleic Acid Atoms 0
    Heterogen Atoms 29
    Solvent Atoms 65
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BlueIce
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution AMoRE
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building AMoRE
    data collection BlueIce