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X-RAY DIFFRACTION
Materials and Methods page
4G1N
  •   Crystallization Hide
    Crystallization Experiments
    Method EVAPORATION
    pH 7.8
    Temperature 291.0
    Details 0.1 M Imidazole pH 7.8, 20 %(w/v) PEG 6000, 15 mg/ml PKM2, EVAPORATION, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 168.12 α = 90
    b = 94.14 β = 99.39
    c = 146.15 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Detector
    Detector CCD
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 14-ID-B
    Site APS
    Beamline 14-ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 2.3
    Resolution(Low) 50
    Number Reflections(All) 94346
    Number Reflections(Observed) 94063
    Percent Possible(Observed) 99.7
    R Merge I(Observed) 0.125
    Redundancy 5.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.3
    Resolution(Low) 40.24
    Cut-off Sigma(I) 1.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 94063
    Number of Reflections(R-Free) 4951
    Percent Reflections(Observed) 99.01
    R-Factor(All) 0.2142
    R-Work 0.2115
    R-Free 0.2662
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 48.2193
    Anisotropic B[1][1] -0.23
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.02
    Anisotropic B[2][2] 0.32
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3
    Shell Resolution(Low) 2.36
    Number of Reflections(R-Free) 399
    Number of Reflections(R-Work) 6859
    R-Factor(R-Work) 0.279
    R-Factor(R-Free) 0.349
    Percent Reflections(Observed) 98.59
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.005
    r_chiral_restr 0.085
    r_dihedral_angle_4_deg 18.515
    r_dihedral_angle_3_deg 16.24
    r_dihedral_angle_2_deg 37.016
    r_dihedral_angle_1_deg 5.528
    r_angle_refined_deg 1.293
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 15860
    Nucleic Acid Atoms 0
    Heterogen Atoms 96
    Solvent Atoms 222
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASES
    Structure Refinement REFMAC 5.0
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.7.0029