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X-RAY DIFFRACTION
Materials and Methods page
3VUX
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 293.0
    Details 10mM Tris-HCl, 150mM NaCl, 0.2M Na/K tartrate, 20% PEG 3350, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 62.33 α = 90
    b = 62.33 β = 90
    c = 85.18 γ = 120
     
    Space Group
    Space Group Name:    P 31
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX225HE
    Collection Date 2011-06-22
     
    Diffraction Radiation
    Monochromator Double-crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL41XU
    Wavelength List 1
    Site SPRING-8
    Beamline BL41XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.7
    Resolution(Low) 50
    Number Reflections(All) 40121
    Number Reflections(Observed) 40121
    Percent Possible(Observed) 98.3
    R Merge I(Observed) 0.095
    Redundancy 3.8
     
    High Resolution Shell Details
    Resolution(High) 1.7
    Resolution(Low) 1.73
    Percent Possible(All) 89.6
    R Merge I(Observed) 0.37
    Redundancy 2.2
    Number Unique Reflections(All) 1826
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.699
    Resolution(Low) 26.989
    Cut-off Sigma(F) 2.11
    Number of Reflections(all) 40113
    Number of Reflections(Observed) 40113
    Number of Reflections(R-Free) 2015
    Percent Reflections(Observed) 98.4
    R-Factor(All) 0.1671
    R-Factor(Observed) 0.1671
    R-Work 0.1654
    R-Free 0.203
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 31.128
    Anisotropic B[1][1] 5.8668
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 5.8668
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -11.7335
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7003
    Shell Resolution(Low) 1.7428
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2531
    R-Factor(R-Work) 0.2856
    R-Factor(R-Free) 0.3279
    Percent Reflections(Observed) 86.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7428
    Shell Resolution(Low) 1.79
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2640
    R-Factor(R-Work) 0.2527
    R-Factor(R-Free) 0.2574
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.79
    Shell Resolution(Low) 1.8426
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2692
    R-Factor(R-Work) 0.2444
    R-Factor(R-Free) 0.2973
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8426
    Shell Resolution(Low) 1.9021
    Number of Reflections(R-Free) 147
    Number of Reflections(R-Work) 2718
    R-Factor(R-Work) 0.2218
    R-Factor(R-Free) 0.2566
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9021
    Shell Resolution(Low) 1.97
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2719
    R-Factor(R-Work) 0.2031
    R-Factor(R-Free) 0.2314
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.97
    Shell Resolution(Low) 2.0489
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2697
    R-Factor(R-Work) 0.1977
    R-Factor(R-Free) 0.2352
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0489
    Shell Resolution(Low) 2.1421
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2783
    R-Factor(R-Work) 0.1753
    R-Factor(R-Free) 0.2104
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1421
    Shell Resolution(Low) 2.2549
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 2772
    R-Factor(R-Work) 0.1783
    R-Factor(R-Free) 0.2399
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2549
    Shell Resolution(Low) 2.3961
    Number of Reflections(R-Free) 158
    Number of Reflections(R-Work) 2762
    R-Factor(R-Work) 0.1759
    R-Factor(R-Free) 0.2041
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3961
    Shell Resolution(Low) 2.5809
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2740
    R-Factor(R-Work) 0.1741
    R-Factor(R-Free) 0.2273
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5809
    Shell Resolution(Low) 2.8404
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2772
    R-Factor(R-Work) 0.1672
    R-Factor(R-Free) 0.2203
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8404
    Shell Resolution(Low) 3.2506
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2719
    R-Factor(R-Work) 0.1603
    R-Factor(R-Free) 0.1851
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2506
    Shell Resolution(Low) 4.0926
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 2759
    R-Factor(R-Work) 0.1289
    R-Factor(R-Free) 0.1773
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0926
    Shell Resolution(Low) 25.1317
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2761
    R-Factor(R-Work) 0.1261
    R-Factor(R-Free) 0.1552
    Percent Reflections(Observed) 95.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 14.588
    f_plane_restr 0.003
    f_chiral_restr 0.058
    f_angle_d 0.92
    f_bond_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2547
    Nucleic Acid Atoms 0
    Heterogen Atoms 10
    Solvent Atoms 321
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BSS
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement PHENIX (phenix.refine: 1.7.2_869)
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    data reduction SCALEPACK