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X-RAY DIFFRACTION
Materials and Methods page
3NX5
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion
    pH 6.5
    Temperature 296.0
    Details MPD, MgCl2, NaCl, pH 6.5, vapor diffusion, temperature 296K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 29.99 α = 90
    b = 29.99 β = 90
    c = 119.07 γ = 120
     
    Space Group
    Space Group Name:    P 32 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2010-02-08
     
    Diffraction Radiation
    Monochromator Si(111) monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID29
    Wavelength List 0.9763
    Site ESRF
    Beamline ID29
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.29
    Resolution(Low) 39.69
    Number Reflections(Observed) 3006
    Percent Possible(Observed) 96.3
    R Merge I(Observed) 0.051
    B(Isotropic) From Wilson Plot 47.698
    Redundancy 4.9
     
    High Resolution Shell Details
    Resolution(High) 2.29
    Resolution(Low) 2.43
    Percent Possible(All) 85.1
    R Merge I(Observed) 0.112
    Mean I Over Sigma(Observed) 6.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.31
    Resolution(Low) 39.69
    Number of Reflections(Observed) 2719
    Number of Reflections(R-Free) 289
    Percent Reflections(Observed) 97.73
    R-Factor(Observed) 0.2552
    R-Work 0.2521
    R-Free 0.2833
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 33.9258
    Anisotropic B[1][1] -22.27
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -22.27
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 44.54
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.305
    Shell Resolution(Low) 2.365
    Number of Reflections(R-Free) 24
    Number of Reflections(R-Work) 168
    R-Factor(R-Work) 0.79
    R-Factor(R-Free) 0.974
    Percent Reflections(Observed) 87.67
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.387
    r_scbond_it 1.469
    r_mcangle_it 1.129
    r_mcbond_it 0.495
    r_gen_planes_refined 0.007
    r_chiral_restr 0.063
    r_angle_refined_deg 2.403
    r_bond_refined_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 450
    Heterogen Atoms 26
    Solvent Atoms 5
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0072
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    molecular replacement MOLREP
    data processing Xscale