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X-RAY DIFFRACTION
Materials and Methods page
4I6O
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 277.0
    Details VAPOR DIFFUSION, HANGING DROP, 1 uL 5 mg/mL lyophilized C3a in 2 mM hydrochloric acid + 1 uL reservoir (0.1 M Tris-HCl, 0.2 M ammonium phosphate monobasic, 49-51% v/v MPD, pH 8.5) against 500 uL reservoir, prepared at 277K, incubated at 281K for 96 hours, stored at 277K, rhomboid-shaped crystals appeared after 6 days and grew to a final size of 0.5 x 0.2 x 0.2 mm
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 68.29 α = 90
    b = 68.29 β = 90
    c = 39.27 γ = 120
     
    Space Group
    Space Group Name:    P 63
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2012-10-24
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type AUSTRALIAN SYNCHROTRON BEAMLINE MX2
    Wavelength List 0.95370
    Site AUSTRALIAN SYNCHROTRON
    Beamline MX2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.14
    Resolution(Low) 39.27
    Number Reflections(Observed) 5870
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.106
    B(Isotropic) From Wilson Plot 61.793
    Redundancy 22.1
     
    High Resolution Shell Details
    Resolution(High) 2.14
    Resolution(Low) 2.2
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.787
    Mean I Over Sigma(Observed) 3.4
    Redundancy 22.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.14
    Resolution(Low) 19.42
    Cut-off Sigma(I) 2.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 5870
    Number of Reflections(Observed) 4899
    Number of Reflections(R-Free) 946
    Percent Reflections(Observed) 99.81
    R-Factor(All) 0.21839
    R-Factor(Observed) 0.21839
    R-Work 0.20845
    R-Free 0.26793
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 61.793
    Anisotropic B[1][1] -0.04
    Anisotropic B[1][2] -0.04
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.04
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.12
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.14
    Shell Resolution(Low) 2.199
    Number of Reflections(Observed) 369
    Number of Reflections(R-Free) 70
    Number of Reflections(R-Work) 369
    R-Factor(R-Work) 0.262
    R-Factor(R-Free) 0.373
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.007
    r_chiral_restr 0.111
    r_dihedral_angle_4_deg 18.554
    r_dihedral_angle_3_deg 20.819
    r_dihedral_angle_2_deg 28.643
    r_dihedral_angle_1_deg 4.943
    r_angle_other_deg 0.895
    r_angle_refined_deg 1.907
    r_bond_other_d 0.001
    r_bond_refined_d 0.017
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 557
    Nucleic Acid Atoms 0
    Heterogen Atoms 8
    Solvent Atoms 19
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu-ice
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.7.0029
     
    Software
    refinement REFMAC version: 5.7.0029
    model building PHASER
    data collection Blu-ice