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X-RAY DIFFRACTION
Materials and Methods page
4EFS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.5
    Temperature 293.0
    Details Protein solution - 0.53 mM F67D mutant of human MMP12 residues 106-263 in 0.1 M acetohydroxamic acid 0.003 M CaCl2, 0.200 M NaCl 0.02 M Tris-HCl, pH 7.5. Reservoir solution -27% PEG 10K,0.2 M imidazole malate cryoconditions - CryoProtX-Cryomix 7, 25% MPEG 5K, 0.1 M AAB 10/90, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 68.97 α = 90
    b = 63.19 β = 90
    c = 37.51 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type PSI PILATUS 6M
    Details mirrors
    Collection Date 2012-02-17
     
    Diffraction Radiation
    Monochromator SAGITALLY FOCUSED Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SOLEIL BEAMLINE PROXIMA 1
    Wavelength List 0.918400
    Site SOLEIL
    Beamline PROXIMA 1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.63
    Resolution(Low) 46.59
    Number Reflections(All) 21260
    Number Reflections(Observed) 20710
    Percent Possible(Observed) 97.4
    R Merge I(Observed) 0.086
    B(Isotropic) From Wilson Plot 25.023
    Redundancy 8.72
     
    High Resolution Shell Details
    Resolution(High) 1.63
    Resolution(Low) 1.72
    Percent Possible(All) 99.3
    R Merge I(Observed) 0.726
    Mean I Over Sigma(Observed) 3.31
    R-Sym I(Observed) 0.683
    Redundancy 8.55
    Number Unique Reflections(All) 3230
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method RIGID BODY
    reflnsShellList 1.63
    Resolution(Low) 46.59
    Cut-off Sigma(I) -3.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 21260
    Number of Reflections(Observed) 20063
    Number of Reflections(R-Free) 1056
    Percent Reflections(Observed) 100.0
    R-Factor(Observed) 0.15554
    R-Work 0.15368
    R-Free 0.19044
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 20.811
    Anisotropic B[1][1] -1.05
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.31
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.35
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.626
    Shell Resolution(Low) 1.669
    Number of Reflections(R-Free) 71
    Number of Reflections(R-Work) 1352
    R-Factor(R-Work) 0.263
    R-Factor(R-Free) 0.365
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 5.809
    r_scbond_it 3.74
    r_mcangle_it 2.682
    r_mcbond_it 1.613
    r_gen_planes_refined 0.016
    r_chiral_restr 0.182
    r_dihedral_angle_4_deg 21.192
    r_dihedral_angle_3_deg 14.826
    r_dihedral_angle_2_deg 35.385
    r_dihedral_angle_1_deg 6.638
    r_angle_refined_deg 2.607
    r_bond_refined_d 0.029
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1246
    Nucleic Acid Atoms 0
    Heterogen Atoms 73
    Solvent Atoms 139
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution REFMAC 5.5.0109
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building REFMAC version: 5.5.0109
    data collection DNA