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X-RAY DIFFRACTION
Materials and Methods page
3U3A
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 298.0
    Details 1.4 M Sodium Citrate 50 mM Tris pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42.22 α = 90
    b = 41.27 β = 104.24
    c = 72.08 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS IV++
    Details mirrors
    Collection Date 2010-12-10
     
    Diffraction Radiation
    Monochromator Rigaku Varimax HR
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RUH3R
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.55
    Resolution(Low) 50
    Number Reflections(All) 31577
    Number Reflections(Observed) 31199
    Percent Possible(Observed) 89.8
    Redundancy 4.6
     
    High Resolution Shell Details
    Resolution(High) 1.55
    Resolution(Low) 1.61
    Percent Possible(All) 85.4
    R Merge I(Observed) 0.283
    Redundancy 4.6
    Number Unique Reflections(All) 2974
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.549
    Resolution(Low) 30.533
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 31577
    Number of Reflections(Observed) 31199
    Number of Reflections(R-Free) 1989
    Percent Reflections(Observed) 88.51
    R-Factor(All) 0.1645
    R-Factor(Observed) 0.1633
    R-Work 0.1628
    R-Free 0.1908
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 16.4863
    Anisotropic B[1][1] -1.0559
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.1473
    Anisotropic B[2][2] -0.3107
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.3665
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5491
    Shell Resolution(Low) 1.5879
    Number of Reflections(R-Free) 113
    Number of Reflections(R-Work) 1864
    R-Factor(R-Work) 0.3206
    R-Factor(R-Free) 0.3582
    Percent Reflections(Observed) 79.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5879
    Shell Resolution(Low) 1.6308
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 1926
    R-Factor(R-Work) 0.2622
    R-Factor(R-Free) 0.2689
    Percent Reflections(Observed) 82.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6308
    Shell Resolution(Low) 1.6788
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 1967
    R-Factor(R-Work) 0.2163
    R-Factor(R-Free) 0.259
    Percent Reflections(Observed) 85.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6788
    Shell Resolution(Low) 1.7329
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 2023
    R-Factor(R-Work) 0.178
    R-Factor(R-Free) 0.2123
    Percent Reflections(Observed) 86.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7329
    Shell Resolution(Low) 1.7949
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2028
    R-Factor(R-Work) 0.1599
    R-Factor(R-Free) 0.1804
    Percent Reflections(Observed) 87.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7949
    Shell Resolution(Low) 1.8667
    Number of Reflections(R-Free) 127
    Number of Reflections(R-Work) 2053
    R-Factor(R-Work) 0.1377
    R-Factor(R-Free) 0.2066
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8667
    Shell Resolution(Low) 1.9517
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2082
    R-Factor(R-Work) 0.1468
    R-Factor(R-Free) 0.1652
    Percent Reflections(Observed) 89.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9517
    Shell Resolution(Low) 2.0546
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2120
    R-Factor(R-Work) 0.1527
    R-Factor(R-Free) 0.1704
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0546
    Shell Resolution(Low) 2.1832
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2139
    R-Factor(R-Work) 0.1588
    R-Factor(R-Free) 0.1863
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1832
    Shell Resolution(Low) 2.3518
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2125
    R-Factor(R-Work) 0.1575
    R-Factor(R-Free) 0.1984
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3518
    Shell Resolution(Low) 2.5883
    Number of Reflections(R-Free) 145
    Number of Reflections(R-Work) 2165
    R-Factor(R-Work) 0.1597
    R-Factor(R-Free) 0.1677
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5883
    Shell Resolution(Low) 2.9626
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 2216
    R-Factor(R-Work) 0.1642
    R-Factor(R-Free) 0.2085
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9626
    Shell Resolution(Low) 3.7315
    Number of Reflections(R-Free) 158
    Number of Reflections(R-Work) 2225
    R-Factor(R-Work) 0.1481
    R-Factor(R-Free) 0.1781
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7315
    Shell Resolution(Low) 30.5391
    Number of Reflections(R-Free) 161
    Number of Reflections(R-Work) 2277
    R-Factor(R-Work) 0.1574
    R-Factor(R-Free) 0.18
    Percent Reflections(Observed) 94.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 13.08
    f_plane_restr 0.005
    f_chiral_restr 0.079
    f_angle_d 1.125
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2060
    Nucleic Acid Atoms 0
    Heterogen Atoms 13
    Solvent Atoms 243
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.7_650)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data reduction HKL