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X-RAY DIFFRACTION
Materials and Methods page
3GMZ
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.2
    Temperature 298.0
    Details Crystalline DFMO and L-ornithine complexes with human arginase I were prepared by soaking these ligands into pre-formed crystals of the native enzyme, which were prepared by the hanging drop vapor diffusion method at 21 C. Typically, drops containing 3 uL of protein solution [3.5 mg/mL protein, 50 mM bicine (pH 8.5), 2 mM thymine, 100 uM MnCl2] and 3 uL of precipitant solution [0.1 M bis-Tris (pH 6.5), 28% PEG monomethyl ether 2000] were equilibrated over a 1 mL reservoir of precipitant solution. VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 90.39 α = 90
    b = 90.39 β = 90
    c = 69.42 γ = 120
     
    Space Group
    Space Group Name:    P 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2008-06-13
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 24-ID-C
    Wavelength List 1.0
    Site APS
    Beamline 24-ID-C
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.43
    Resolution(Low) 50
    Number Reflections(All) 116771
    Number Reflections(Observed) 116771
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.067
     
    High Resolution Shell Details
    Resolution(High) 1.43
    Resolution(Low) 1.53
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.64
    Mean I Over Sigma(Observed) 2.0
    R-Sym I(Observed) 0.64
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method FOURIER SYNTHESIS
    reflnsShellList 1.43
    Resolution(Low) 50.0
    Number of Reflections(all) 111891
    Number of Reflections(Observed) 111891
    Number of Reflections(R-Free) 5513
    R-Work 0.147
    R-Free 0.185
    R-Free Selection Details throughout
     
    Temperature Factor Modeling
    Mean Isotropic B Value 20.503
    Anisotropic B[1][1] -1.068
    Anisotropic B[1][2] -0.75
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -1.068
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.137
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 2.206
    c_mcangle_it 1.503
    c_scbond_it 1.572
    c_mcbond_it 0.966
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4790
    Nucleic Acid Atoms 0
    Heterogen Atoms 22
    Solvent Atoms 393
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS
     
    Software
    refinement CNS
    model building CNS
    data collection ADSC version: Quantum