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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4B8J
  •   Crystallization Hide
    Crystallization Experiments
    pH 7
    Details 0.1 M BIS-TRIS PROPANE PH 7.0, 15-17% PEG 3350, 0.2 M NAF, 0.2 M NDSB-221.
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 134.25 α = 90
    b = 72.74 β = 91.18
    c = 62.42 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD (QUANTUM 315R)
    Type ADSC
    Collection Date 2011-08-20
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX2
    Wavelength 0.9537
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2
    Resolution(Low) 19.84
    Number Reflections(Observed) 40273
    Percent Possible(Observed) 99.1
    R Merge I(Observed) 0.05
    B(Isotropic) From Wilson Plot 23.2
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.11
    Percent Possible(All) 95.7
    R Merge I(Observed) 0.22
    Mean I Over Sigma(Observed) 5.4
    Redundancy 3.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.001
    Resolution(Low) 19.841
    Cut-off Sigma(F) 1.33
    Number of Reflections(Observed) 40259
    Number of Reflections(R-Free) 2015
    Percent Reflections(Observed) 99.15
    R-Factor(Observed) 0.1496
    R-Work 0.1481
    R-Free 0.1778
     
    Temperature Factor Modeling
    Mean Isotropic B Value 33.7
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0009
    Shell Resolution(Low) 2.0509
    Number of Reflections(R-Free) 122
    Number of Reflections(R-Work) 2471
    R-Factor(R-Work) 0.1866
    R-Factor(R-Free) 0.2432
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0509
    Shell Resolution(Low) 2.1063
    Number of Reflections(R-Free) 126
    Number of Reflections(R-Work) 2757
    R-Factor(R-Work) 0.1549
    R-Factor(R-Free) 0.1811
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1063
    Shell Resolution(Low) 2.1682
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2771
    R-Factor(R-Work) 0.1357
    R-Factor(R-Free) 0.1833
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1682
    Shell Resolution(Low) 2.2381
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2754
    R-Factor(R-Work) 0.1291
    R-Factor(R-Free) 0.1621
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2381
    Shell Resolution(Low) 2.318
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2722
    R-Factor(R-Work) 0.13
    R-Factor(R-Free) 0.1433
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.318
    Shell Resolution(Low) 2.4106
    Number of Reflections(R-Free) 141
    Number of Reflections(R-Work) 2752
    R-Factor(R-Work) 0.1327
    R-Factor(R-Free) 0.1807
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4106
    Shell Resolution(Low) 2.5201
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 2754
    R-Factor(R-Work) 0.136
    R-Factor(R-Free) 0.1743
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5201
    Shell Resolution(Low) 2.6527
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2735
    R-Factor(R-Work) 0.1382
    R-Factor(R-Free) 0.161
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6527
    Shell Resolution(Low) 2.8185
    Number of Reflections(R-Free) 154
    Number of Reflections(R-Work) 2749
    R-Factor(R-Work) 0.1468
    R-Factor(R-Free) 0.1777
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8185
    Shell Resolution(Low) 3.0354
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2737
    R-Factor(R-Work) 0.1512
    R-Factor(R-Free) 0.1715
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0354
    Shell Resolution(Low) 3.3395
    Number of Reflections(R-Free) 144
    Number of Reflections(R-Work) 2763
    R-Factor(R-Work) 0.1591
    R-Factor(R-Free) 0.1643
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3395
    Shell Resolution(Low) 3.8198
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 2774
    R-Factor(R-Work) 0.1484
    R-Factor(R-Free) 0.1923
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.8198
    Shell Resolution(Low) 4.8012
    Number of Reflections(R-Free) 172
    Number of Reflections(R-Work) 2755
    R-Factor(R-Work) 0.1327
    R-Factor(R-Free) 0.1738
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.8012
    Shell Resolution(Low) 19.8417
    Number of Reflections(R-Free) 155
    Number of Reflections(R-Work) 2750
    R-Factor(R-Work) 0.1772
    R-Factor(R-Free) 0.1927
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.007
    f_chiral_restr 0.076
    f_dihedral_angle_d 14.203
    f_angle_d 1.18
    f_bond_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3319
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 278
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution MOLREP
    Structure Refinement PHENIX (PHENIX.REFINE)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE)
    model building MOLREP