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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4JNK
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 300.0
    Details PEG3350, malonate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 300K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 168.25 α = 90
    b = 81.49 β = 117.13
    c = 120.41 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 110
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2011-10-26
     
    Diffraction Radiation
    Monochromator Si 111
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 5.0.1
    Wavelength List 0.9774
    Site ALS
    Beamline 5.0.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.9
    Resolution(Low) 50
    Number Reflections(All) 114391
    Percent Possible(Observed) 99.8
    B(Isotropic) From Wilson Plot 21.0
    Redundancy 3.7
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.896
    Resolution(Low) 35.022
    Cut-off Sigma(F) 1.34
    Number of Reflections(R-Free) 684
    Percent Reflections(Observed) 99.5
    R-Factor(All) 0.161
    R-Factor(Observed) 0.1597
    R-Work 0.1594
    R-Free 0.2044
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Isotropic Thermal Model individual atom
    Anisotropic B[1][1] 3.2422
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.3282
    Anisotropic B[2][2] -1.225
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.0172
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8963
    Shell Resolution(Low) 2.0427
    Number of Reflections(R-Free) 130
    Number of Reflections(R-Work) 22428
    R-Factor(R-Work) 0.2275
    R-Factor(R-Free) 0.2753
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0427
    Shell Resolution(Low) 2.2483
    Number of Reflections(R-Free) 138
    Number of Reflections(R-Work) 22616
    R-Factor(R-Work) 0.1791
    R-Factor(R-Free) 0.1931
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2483
    Shell Resolution(Low) 2.5735
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 22683
    R-Factor(R-Work) 0.167
    R-Factor(R-Free) 0.2418
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5735
    Shell Resolution(Low) 3.242
    Number of Reflections(R-Free) 128
    Number of Reflections(R-Work) 22815
    R-Factor(R-Work) 0.154
    R-Factor(R-Free) 0.2119
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.242
    Shell Resolution(Low) 35.0282
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 22952
    R-Factor(R-Work) 0.1392
    R-Factor(R-Free) 0.1777
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.004
    f_chiral_restr 0.069
    f_dihedral_angle_d 18.369
    f_angle_d 1.064
    f_bond_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 10232
    Nucleic Acid Atoms 0
    Heterogen Atoms 341
    Solvent Atoms 1222
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BOS
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement PHENIX (phenix.refine: 1.7.3_928)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.7.3_928)
    model building PHASER
    data collection BOS