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X-RAY DIFFRACTION
Materials and Methods page
4HZP
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 298.0
    Details Protein: 20 mg/mL in 100 mM NaCl and 10 mM Tris-HCl, pH 8.0 plus 10 mM methylmalonyl-CoA. Precipitant: 20 - 23% MEPEG 2000, 0.25-0.35 M (NH4)2SO4 and 0.1 M Bis-tris propane-HCl, pH 7.0 in 4 L drops (1:1, protein:well). , VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 59.71 α = 90
    b = 59.71 β = 90
    c = 311.11 γ = 120
     
    Space Group
    Space Group Name:    P 61 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MAR scanner 300 mm plate
    Collection Date 2009-12-10
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 21-ID-G
    Wavelength List 0.97857
    Site APS
    Beamline 21-ID-G
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.77
    Resolution(Low) 30
    Number Reflections(All) 33385
    Number Reflections(Observed) 32885
    Percent Possible(Observed) 98.5
    R Merge I(Observed) 0.107
    Redundancy 9.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.77
    Resolution(Low) 29.72
    Number of Reflections(Observed) 30964
    Number of Reflections(R-Free) 1656
    Percent Reflections(Observed) 97.92
    R-Factor(Observed) 0.2274
    R-Work 0.2249
    R-Free 0.27477
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 27.185
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.773
    Shell Resolution(Low) 1.818
    Number of Reflections(R-Free) 125
    Number of Reflections(R-Work) 2185
    R-Factor(R-Work) 0.294
    R-Factor(R-Free) 0.402
    Percent Reflections(Observed) 97.22
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.644
    r_scbond_it 3.032
    r_mcangle_it 2.001
    r_mcbond_it 1.249
    r_gen_planes_refined 0.01
    r_chiral_restr 0.14
    r_dihedral_angle_4_deg 18.874
    r_dihedral_angle_3_deg 16.62
    r_dihedral_angle_2_deg 35.456
    r_dihedral_angle_1_deg 6.69
    r_angle_refined_deg 1.98
    r_bond_refined_d 0.022
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2335
    Nucleic Acid Atoms 0
    Heterogen Atoms 37
    Solvent Atoms 160
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    data collection HKL-2000