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X-RAY DIFFRACTION
Materials and Methods page
4GR0
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.5
    Temperature 293.0
    Details Protein complex: hMMP12 F171D 855 microM, inhibitor 0.788 milliM. Reservoir: 35% PEG 4,000 0.2M imidazole malate pH 8.5. Drops: 1 microL protein complex + 1 microL reservoir. Cryoprotectant: 40% MPEG 5K, 10% 1,2-propanediol, (10% (Na acetate, ADA, Bicine) 90% at pH 4/ 10% at pH 9.0). Flash freezing in Liquid N2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 69.77 α = 90
    b = 62.76 β = 90
    c = 37.84 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 ADSC QUANTUM 4r
    Details mirrors
    Collection Date 2010-04-24
     
    Diffraction Radiation
    Monochromator Diamond (111), Ge(220)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-1
    Wavelength List 0.9334
    Site ESRF
    Beamline ID14-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.5
    Resolution(Low) 50
    Number Reflections(All) 27502
    Number Reflections(Observed) 26347
    Percent Possible(Observed) 95.6
    R Merge I(Observed) 0.111
    B(Isotropic) From Wilson Plot 20.815
    Redundancy 3.51
     
    High Resolution Shell Details
    Resolution(High) 1.5
    Resolution(Low) 1.59
    Percent Possible(All) 77.7
    R Merge I(Observed) 1.04
    Mean I Over Sigma(Observed) 1.19
    R-Sym I(Observed) 0.849
    Redundancy 2.88
    Number Unique Reflections(All) 4388
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.497
    Resolution(Low) 32.406
    Cut-off Sigma(I) -3.0
    Cut-off Sigma(F) 1.99
    Number of Reflections(all) 26347
    Number of Reflections(Observed) 26336
    Number of Reflections(R-Free) 1317
    Percent Reflections(Observed) 95.79
    R-Factor(Observed) 0.188
    R-Work 0.1864
    R-Free 0.2178
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 11.4
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.497
    Shell Resolution(Low) 1.5569
    Number of Reflections(Observed) 2095
    Number of Reflections(R-Free) 110
    Number of Reflections(R-Work) 2095
    R-Factor(R-Work) 0.3188
    R-Factor(R-Free) 0.3971
    Percent Reflections(Observed) 73.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.5569
    Shell Resolution(Low) 1.6277
    Number of Reflections(Observed) 2648
    Number of Reflections(R-Free) 139
    Number of Reflections(R-Work) 2648
    R-Factor(R-Work) 0.2808
    R-Factor(R-Free) 0.3282
    Percent Reflections(Observed) 93.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6277
    Shell Resolution(Low) 1.7136
    Number of Reflections(Observed) 2830
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2830
    R-Factor(R-Work) 0.2481
    R-Factor(R-Free) 0.2847
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.7136
    Shell Resolution(Low) 1.8209
    Number of Reflections(Observed) 2825
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2825
    R-Factor(R-Work) 0.2182
    R-Factor(R-Free) 0.263
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8209
    Shell Resolution(Low) 1.9615
    Number of Reflections(Observed) 2860
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2860
    R-Factor(R-Work) 0.1927
    R-Factor(R-Free) 0.2093
    Percent Reflections(Observed) 99.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.9615
    Shell Resolution(Low) 2.1588
    Number of Reflections(Observed) 2877
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 2877
    R-Factor(R-Work) 0.168
    R-Factor(R-Free) 0.2084
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1588
    Shell Resolution(Low) 2.4711
    Number of Reflections(Observed) 2896
    Number of Reflections(R-Free) 152
    Number of Reflections(R-Work) 2896
    R-Factor(R-Work) 0.1723
    R-Factor(R-Free) 0.2082
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4711
    Shell Resolution(Low) 3.113
    Number of Reflections(Observed) 2915
    Number of Reflections(R-Free) 154
    Number of Reflections(R-Work) 2915
    R-Factor(R-Work) 0.1684
    R-Factor(R-Free) 0.1977
    Percent Reflections(Observed) 100.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.113
    Shell Resolution(Low) 32.4131
    Number of Reflections(Observed) 3073
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 3073
    R-Factor(R-Work) 0.1566
    R-Factor(R-Free) 0.177
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_plane_restr 0.006
    f_chiral_restr 0.077
    f_dihedral_angle_d 15.251
    f_angle_d 1.107
    f_bond_d 0.006
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1246
    Nucleic Acid Atoms 0
    Heterogen Atoms 49
    Solvent Atoms 193
     
     
  •   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)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.8_1069)
    model building MOLREP
    data collection DNA