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X-RAY DIFFRACTION
Materials and Methods page
3W3C
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION
    pH 4.3
    Temperature 295.0
    Details 0.1M MgCl2, 0.1M Sodium Acetate, 30% PEG400, 8%(v/v)1,3-Butanediol, pH 4.3, VAPOR DIFFUSION, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 56.14 α = 90
    b = 163.4 β = 90
    c = 39.67 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2012-12-12
     
    Diffraction Radiation
    Monochromator double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRF BEAMLINE BL17U
    Wavelength List 1.54001
    Site SSRF
    Beamline BL17U
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) -3.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.43
    Resolution(Low) 40.85
    Number Reflections(All) 13931
    Number Reflections(Observed) 13895
    Percent Possible(Observed) 96.6
    R Merge I(Observed) 0.049
    B(Isotropic) From Wilson Plot 46.6
    Redundancy 4.95
     
    High Resolution Shell Details
    Resolution(High) 2.43
    Resolution(Low) 2.58
    Percent Possible(All) 95.8
    Mean I Over Sigma(Observed) 4.77
    R-Sym I(Observed) 0.254
    Redundancy 3.97
    Number Unique Reflections(All) 2174
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.431
    Resolution(Low) 40.85
    Cut-off Sigma(F) 1.88
    Number of Reflections(all) 13893
    Number of Reflections(Observed) 13893
    Number of Reflections(R-Free) 694
    Percent Reflections(Observed) 96.31
    R-Factor(Observed) 0.2647
    R-Work 0.264
    R-Free 0.2797
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 59.666
    Anisotropic B[1][1] 11.0965
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -7.1143
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -3.9822
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4314
    Shell Resolution(Low) 2.6191
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 2583
    R-Factor(R-Work) 0.3532
    R-Factor(R-Free) 0.3778
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6191
    Shell Resolution(Low) 2.8826
    Number of Reflections(R-Free) 142
    Number of Reflections(R-Work) 2686
    R-Factor(R-Work) 0.3181
    R-Factor(R-Free) 0.3579
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8826
    Shell Resolution(Low) 3.2995
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2695
    R-Factor(R-Work) 0.291
    R-Factor(R-Free) 0.2874
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2995
    Shell Resolution(Low) 4.1564
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2367
    R-Factor(R-Work) 0.2843
    R-Factor(R-Free) 0.2935
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1564
    Shell Resolution(Low) 40.8557
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2868
    R-Factor(R-Work) 0.2058
    R-Factor(R-Free) 0.2245
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 25.488
    f_plane_restr 0.003
    f_chiral_restr 0.036
    f_angle_d 0.748
    f_bond_d 0.002
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 931
    Nucleic Acid Atoms 1060
    Heterogen Atoms 0
    Solvent Atoms 70
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS package
    Data Reduction (data scaling) XDS package
    Structure Solution Phaser for MR
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.3_928)
    model building Phaser version: for MR
    data collection ADSC version: Quantum