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X-RAY DIFFRACTION
Materials and Methods page
3W39
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 293.0
    Details 20% PEG 3350, 0.2M sodium acetate, 0.1M Bis Tris propane, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 69.04 α = 90
    b = 83.25 β = 90
    c = 170.35 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX-225
    Details mirrors
    Collection Date 2012-01-31
     
    Diffraction Radiation
    Monochromator silicon
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL41XU
    Wavelength List 1.000
    Site SPRING-8
    Beamline BL41XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 3.1
    Resolution(Low) 46.9
    Number Reflections(All) 18422
    Number Reflections(Observed) 18422
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.241
    B(Isotropic) From Wilson Plot 23.07
    Redundancy 9.0
     
    High Resolution Shell Details
    Resolution(High) 3.1
    Resolution(Low) 3.27
    Percent Possible(All) 98.2
    R Merge I(Observed) 0.596
    Mean I Over Sigma(Observed) 1.2
    Redundancy 7.1
    Number Unique Reflections(All) 2548
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.1
    Resolution(Low) 38.802
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 17704
    Number of Reflections(R-Free) 912
    Percent Reflections(Observed) 95.97
    R-Factor(Observed) 0.2979
    R-Work 0.2952
    R-Free 0.3469
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.3983
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1001
    Shell Resolution(Low) 3.2634
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2165
    R-Factor(R-Work) 0.3554
    R-Factor(R-Free) 0.4535
    Percent Reflections(Observed) 90.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2634
    Shell Resolution(Low) 3.4678
    Number of Reflections(R-Free) 134
    Number of Reflections(R-Work) 2323
    R-Factor(R-Work) 0.3201
    R-Factor(R-Free) 0.4235
    Percent Reflections(Observed) 95.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4678
    Shell Resolution(Low) 3.7353
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 2358
    R-Factor(R-Work) 0.2896
    R-Factor(R-Free) 0.364
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7353
    Shell Resolution(Low) 4.1109
    Number of Reflections(R-Free) 117
    Number of Reflections(R-Work) 2419
    R-Factor(R-Work) 0.2938
    R-Factor(R-Free) 0.3249
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1109
    Shell Resolution(Low) 4.7048
    Number of Reflections(R-Free) 132
    Number of Reflections(R-Work) 2458
    R-Factor(R-Work) 0.2787
    R-Factor(R-Free) 0.3164
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.7048
    Shell Resolution(Low) 5.9242
    Number of Reflections(R-Free) 135
    Number of Reflections(R-Work) 2452
    R-Factor(R-Work) 0.2851
    R-Factor(R-Free) 0.3025
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 5.9242
    Shell Resolution(Low) 38.805
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 2617
    R-Factor(R-Work) 0.2722
    R-Factor(R-Free) 0.2739
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 17.328
    f_plane_restr 0.006
    f_chiral_restr 0.087
    f_angle_d 1.484
    f_bond_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 6312
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection RAYONIX MX225HE
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution molrep
    Structure Refinement PHENIX (phenix.refine: 1.8_1069)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8_1069)
    model building molrep
    data collection RAYONIX version: MX225HE