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X-RAY DIFFRACTION
Materials and Methods page
3L6J
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.3
    Temperature 298.0
    Details 1.8M sodium malonate, pH 7.3, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 123.27 α = 90
    b = 123.27 β = 90
    c = 123.27 γ = 90
     
    Space Group
    Space Group Name:    P 21 3
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 325 mm CCD
    Collection Date 2009-07-15
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL11-1
    Wavelength List 0.97945
    Site SSRL
    Beamline BL11-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Resolution(High) 2.3
    Resolution(Low) 50
    Number Reflections(All) 27974
    Number Reflections(Observed) 27835
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.058
    Redundancy 6.4
     
    High Resolution Shell Details
    Resolution(High) 2.3
    Resolution(Low) 2.38
    Percent Possible(All) 97.0
    R Merge I(Observed) 0.758
    Mean I Over Sigma(Observed) 1.9
    Redundancy 4.6
    Number Unique Reflections(All) 2742
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.3
    Resolution(Low) 30.0
    Number of Reflections(Observed) 26386
    Number of Reflections(R-Free) 1410
    Percent Reflections(Observed) 99.29
    R-Factor(Observed) 0.15256
    R-Work 0.15041
    R-Free 0.19325
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 54.4
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.3
    Shell Resolution(Low) 2.36
    Number of Reflections(R-Free) 96
    Number of Reflections(R-Work) 1854
    R-Factor(R-Work) 0.446
    R-Factor(R-Free) 0.436
    Percent Reflections(Observed) 95.03
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 9.043
    r_scbond_it 6.307
    r_mcangle_it 3.93
    r_mcbond_it 2.389
    r_gen_planes_refined 0.005
    r_chiral_restr 0.066
    r_dihedral_angle_4_deg 21.823
    r_dihedral_angle_3_deg 17.034
    r_dihedral_angle_2_deg 38.06
    r_dihedral_angle_1_deg 5.258
    r_angle_refined_deg 1.127
    r_bond_refined_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2866
    Nucleic Acid Atoms 0
    Heterogen Atoms 84
    Solvent Atoms 82
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution REFMAC
    Structure Refinement REFMAC 5.5.0088
     
    Software
    refinement REFMAC version: 5.5.0088
    model building REFMAC
    data collection HKL-2000