POP-OUT | CLOSE

An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4EP5
  •   Crystallization Hide
    Crystallization Experiments
    pH 4.2
    Temperature 293.0
    Details PEG400, Li2SO4, and sodium acetate, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 35.18 α = 90
    b = 60.02 β = 90
    c = 135.73 γ = 90
     
    Space Group
    Space Group Name:    I 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 96
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2011-12-02
     
    Diffraction Radiation
    Monochromator SI 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 24-ID-E
    Wavelength 0.979
    Site APS
    Beamline 24-ID-E
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.07
    Resolution(Low) 50
    Number Reflections(Observed) 8463
    Percent Possible(Observed) 93.3
    R Merge I(Observed) 0.06
    Redundancy 6.5
     
    High Resolution Shell Details
    Resolution(High) 2.08
    Resolution(Low) 2.12
    Percent Possible(All) 0.7
    R Merge I(Observed) 0.698
    Mean I Over Sigma(Observed) 1.9
    R-Sym I(Observed) 0.698
    Redundancy 5.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.08
    Resolution(Low) 36.13
    Cut-off Sigma(F) 1.37
    Number of Reflections(all) 8444
    Number of Reflections(Observed) 8444
    Number of Reflections(R-Free) 844
    Percent Reflections(Observed) 92.9
    R-Factor(Observed) 0.213
    R-Work 0.208
    R-Free 0.261
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -8.3775
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 26.8988
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -18.5213
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0747
    Shell Resolution(Low) 2.2047
    Number of Reflections(R-Free) 107
    Number of Reflections(R-Work) 954
    R-Factor(R-Work) 0.2548
    R-Factor(R-Free) 0.3161
    Percent Reflections(Observed) 72.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2047
    Shell Resolution(Low) 2.3749
    Number of Reflections(R-Free) 126
    Number of Reflections(R-Work) 1150
    R-Factor(R-Work) 0.228
    R-Factor(R-Free) 0.3332
    Percent Reflections(Observed) 86.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3749
    Shell Resolution(Low) 2.6138
    Number of Reflections(R-Free) 148
    Number of Reflections(R-Work) 1322
    R-Factor(R-Work) 0.2037
    R-Factor(R-Free) 0.222
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.6138
    Shell Resolution(Low) 2.9919
    Number of Reflections(R-Free) 150
    Number of Reflections(R-Work) 1353
    R-Factor(R-Work) 0.1998
    R-Factor(R-Free) 0.1968
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9919
    Shell Resolution(Low) 3.7688
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 1368
    R-Factor(R-Work) 0.2025
    R-Factor(R-Free) 0.25
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.7688
    Shell Resolution(Low) 36.1345
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 1453
    R-Factor(R-Work) 0.2049
    R-Factor(R-Free) 0.2778
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.06
    f_dihedral_angle_d 14.88
    f_angle_d 0.974
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1165
    Nucleic Acid Atoms 0
    Heterogen Atoms 26
    Solvent Atoms 20
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement PHENIX (PHENIX.REFINE: DEV_1114)
     
    Software
    refinement PHENIX version: (phenix.refine: dev_1005)
    model building PHASER
    data collection ADSC version: Quantum