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X-RAY DIFFRACTION
Materials and Methods page
4H2E
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.5
    Temperature 293.0
    Details protein: hMMP-9-WT at 2 mg/mL with 120 milli-M acetohydroxamic acid. Reservoir: 40% monomethyl PEG 5,000, 0.1 M glycine. Cryoprotectant: 35% MPEG 5K, 15% PEG 400, 15% AAB buffer at pH 8.0 , VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 40.18 α = 90
    b = 97.4 β = 111.99
    c = 45.69 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Details mirrors
    Collection Date 2010-12-20
     
    Diffraction Radiation
    Monochromator Si 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SOLEIL BEAMLINE PROXIMA 1
    Wavelength List 0.98011
    Site SOLEIL
    Beamline PROXIMA 1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.9
    Resolution(Low) 50
    Number Reflections(All) 7301
    Number Reflections(Observed) 7158
    Percent Possible(Observed) 98.0
    R Merge I(Observed) 0.195
    B(Isotropic) From Wilson Plot 26.65
    Redundancy 4.15
     
    High Resolution Shell Details
    Resolution(High) 2.9
    Resolution(Low) 3.08
    Percent Possible(All) 96.5
    R Merge I(Observed) 0.53
    Mean I Over Sigma(Observed) 2.9
    R-Sym I(Observed) 0.463
    Redundancy 4.12
    Number Unique Reflections(All) 1189
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLREP
    reflnsShellList 2.902
    Resolution(Low) 38.85
    Cut-off Sigma(I) -3.0
    Cut-off Sigma(F) 2.0
    Number of Reflections(all) 7158
    Number of Reflections(Observed) 7128
    Number of Reflections(R-Free) 357
    Percent Reflections(Observed) 98.03
    R-Factor(Observed) 0.279
    R-Work 0.2771
    R-Free 0.3114
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model grouped/Isotropic
    Mean Isotropic B Value 19.01
    Anisotropic B[1][1] 0.73
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.07
    Anisotropic B[2][2] -1.1
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.17
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9025
    Shell Resolution(Low) 3.3223
    Number of Reflections(Observed) 2238
    Number of Reflections(R-Free) 118
    Number of Reflections(R-Work) 2238
    R-Factor(R-Work) 0.2665
    R-Factor(R-Free) 0.3009
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.3223
    Shell Resolution(Low) 4.1849
    Number of Reflections(Observed) 2260
    Number of Reflections(R-Free) 119
    Number of Reflections(R-Work) 2260
    R-Factor(R-Work) 0.2621
    R-Factor(R-Free) 0.3218
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.1849
    Shell Resolution(Low) 38.8534
    Number of Reflections(Observed) 2273
    Number of Reflections(R-Free) 120
    Number of Reflections(R-Work) 2273
    R-Factor(R-Work) 0.2979
    R-Factor(R-Free) 0.3083
    Percent Reflections(Observed) 98.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.008
    f_chiral_restr 0.084
    f_dihedral_angle_d 26.662
    f_angle_d 1.458
    f_bond_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2608
    Nucleic Acid Atoms 0
    Heterogen Atoms 199
    Solvent Atoms 148
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution MOLREP
    Structure Refinement PHENIX (phenix.refine: 1.8_1069)/REFMAC
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8_1069)/REFMAC
    model building MOLREP
    data collection DNA