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X-RAY DIFFRACTION
Materials and Methods page
4G69
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.25
    Temperature 300.0
    Details Protein solution: 1.4 mM Dlg1 PDZ2, 1.7 mM APC, 100 mM NaCl, 25 mM Tris pH 7.0, 0.1% B-ME Well: 200 mM sodium acetate, 100 mM sodium cacodylate pH 6.25, 28% PEG 8000 Drop = 1:1 protein:well solution , VAPOR DIFFUSION, HANGING DROP, temperature 300K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 27.11 α = 90
    b = 51.18 β = 90
    c = 71.76 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 ADSC QUANTUM 210
    Collection Date 2007-03-08
     
    Diffraction Radiation
    Monochromator collected at 1.127 A
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.3.1
    Wavelength List 1.127
    Site ALS
    Beamline 8.3.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2
    Resolution(Low) 70
    Number Reflections(All) 7000
    Number Reflections(Observed) 6846
    Percent Possible(Observed) 97.8
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.07
    Percent Possible(All) 82.9
    Mean I Over Sigma(Observed) 4.8
    R-Sym I(Observed) 0.22
    Redundancy 3.0
    Number Unique Reflections(All) 590
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 29.379
    Cut-off Sigma(F) 0.1
    Number of Reflections(all) 7000
    Number of Reflections(Observed) 6846
    Number of Reflections(R-Free) 688
    Percent Reflections(Observed) 95.07
    R-Factor(All) 0.1723
    R-Factor(Observed) 0.1723
    R-Work 0.1711
    R-Free 0.1833
    R-Free Selection Details 10%
     
    Temperature Factor Modeling
    Anisotropic B[1][1] -2.8885
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.33
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.5586
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9977
    Shell Resolution(Low) 2.1519
    Number of Reflections(R-Free) 116
    Number of Reflections(R-Work) 1067
    R-Factor(R-Work) 0.164
    R-Factor(R-Free) 0.1872
    Percent Reflections(Observed) 85.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1519
    Shell Resolution(Low) 2.3683
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 1208
    R-Factor(R-Work) 0.1651
    R-Factor(R-Free) 0.2035
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3683
    Shell Resolution(Low) 2.7108
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 1255
    R-Factor(R-Work) 0.1782
    R-Factor(R-Free) 0.1913
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7108
    Shell Resolution(Low) 3.4146
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 1277
    R-Factor(R-Work) 0.1763
    R-Factor(R-Free) 0.1821
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.4146
    Shell Resolution(Low) 29.3823
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 1351
    R-Factor(R-Work) 0.1676
    R-Factor(R-Free) 0.1678
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.063
    f_dihedral_angle_d 12.794
    f_angle_d 0.98
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 769
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 106
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blue Ice
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHENIX
    Structure Refinement PHENIX (phenix.refine: 1.6.1_357)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.6.1_357)
    model building PHENIX
    data collection Blue version: Ice