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X-RAY DIFFRACTION
Materials and Methods page
4AYA
  •   Crystallization Hide
    Crystallization Experiments
    pH 6.5
    Details PROTEIN WAS CRYSTALLIZED FROM 0.1 M MES PH6.5, 2.0 M POTASSIUM ACETATE
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 51.62 α = 90
    b = 51.62 β = 90
    c = 111.47 γ = 120
     
    Space Group
    Space Group Name:    P 32 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 103
     
    Diffraction Detector
    Detector CCD
    Type ADSC
    Collection Date 2009-06-29
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X29A
    Wavelength 1.080900
    Site NSLS
    Beamline X29A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.1
    Resolution(Low) 50
    Number Reflections(Observed) 10569
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.06
    B(Isotropic) From Wilson Plot 41.98
    Redundancy 11.9
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.18
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.42
    Mean I Over Sigma(Observed) 4.2
    Redundancy 10.2
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.103
    Resolution(Low) 44.706
    Cut-off Sigma(F) 0.65
    Number of Reflections(Observed) 10026
    Number of Reflections(R-Free) 987
    Percent Reflections(Observed) 95.2
    R-Factor(Observed) 0.2271
    R-Work 0.2246
    R-Free 0.2497
     
    Temperature Factor Modeling
    Mean Isotropic B Value 54.4
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1031
    Shell Resolution(Low) 2.2139
    Number of Reflections(R-Free) 129
    Number of Reflections(R-Work) 1147
    R-Factor(R-Work) 0.2513
    R-Factor(R-Free) 0.3049
    Percent Reflections(Observed) 88.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2139
    Shell Resolution(Low) 2.3526
    Number of Reflections(R-Free) 136
    Number of Reflections(R-Work) 1228
    R-Factor(R-Work) 0.2351
    R-Factor(R-Free) 0.3124
    Percent Reflections(Observed) 91.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3526
    Shell Resolution(Low) 2.5343
    Number of Reflections(R-Free) 133
    Number of Reflections(R-Work) 1229
    R-Factor(R-Work) 0.2357
    R-Factor(R-Free) 0.3081
    Percent Reflections(Observed) 94.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5343
    Shell Resolution(Low) 2.7893
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 1300
    R-Factor(R-Work) 0.2585
    R-Factor(R-Free) 0.2775
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7893
    Shell Resolution(Low) 3.1928
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1335
    R-Factor(R-Work) 0.2613
    R-Factor(R-Free) 0.3268
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.1928
    Shell Resolution(Low) 4.0222
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1356
    R-Factor(R-Work) 0.2096
    R-Factor(R-Free) 0.2479
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.0222
    Shell Resolution(Low) 44.716
    Number of Reflections(R-Free) 153
    Number of Reflections(R-Work) 1444
    R-Factor(R-Work) 0.2091
    R-Factor(R-Free) 0.1968
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.059
    f_dihedral_angle_d 13.029
    f_angle_d 1.071
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 870
    Nucleic Acid Atoms 0
    Heterogen Atoms 6
    Solvent Atoms 24
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHENIX
    Structure Refinement PHENIX (PHENIX.REFINE)
     
    Software
    refinement PHENIX version: (PHENIX.REFINE)
    model building PHENIX