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X-RAY DIFFRACTION
Materials and Methods page
3TSK
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 9.5
    Temperature 293.0
    Details MMP-12 at 0.4 mM co-crystallized with 100 mM AHA and compound QEG at 1 mM against reservoir solution: 27% PEG 10000, 100 mM Tris-HCl, pH 9.5. 24h in cryoprotectant to remove AHA. 70 MICRO-M compound QEG in 10% di-ethylene glycol, 10% 1.2-propanediol, 10% glycerol, 10% PEG 10K, 200 mM NaCl, 33.3 mM sodium acetate, 33.3 mM ADA, 33.3 mM bicine, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 69.71 α = 90
    b = 63.06 β = 90
    c = 37.95 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 MARMOSAIC 225 mm CCD
    Details bent cylindrical mirror
    Collection Date 2011-02-01
     
    Diffraction Radiation
    Monochromator horizontally diffracting Si (111) monochromator and Pt coated mirrors in Kirkpatrick-Baez geometry for focusing
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID23-2
    Wavelength List 0.87260
    Site ESRF
    Beamline ID23-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2
    Resolution(Low) 33.33
    Number Reflections(Observed) 9572
    Percent Possible(Observed) 83.9
    R Merge I(Observed) 0.142
    Redundancy 3.7
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.11
    Percent Possible(All) 80.9
    R Merge I(Observed) 1.066
    Mean I Over Sigma(Observed) 1.6
    R-Sym I(Observed) 0.926
    Redundancy 3.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method RIGID BODY REFINEMENT
    reflnsShellList 2.0
    Resolution(Low) 33.331
    Number of Reflections(all) 11288
    Number of Reflections(Observed) 9114
    Number of Reflections(R-Free) 458
    Percent Reflections(Observed) 80.74
    R-Factor(Observed) 0.1655
    R-Work 0.16216
    R-Free 0.23174
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Isotropic
    Mean Isotropic B Value 27.721
    Anisotropic B[1][1] -1.44
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.26
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.71
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.052
    Number of Reflections(R-Free) 35
    Number of Reflections(R-Work) 648
    R-Factor(R-Work) 0.232
    R-Factor(R-Free) 0.339
    Percent Reflections(Observed) 80.73
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.129
    r_scbond_it 2.7
    r_mcangle_it 1.756
    r_mcbond_it 1.017
    r_gen_planes_refined 0.01
    r_chiral_restr 0.177
    r_dihedral_angle_4_deg 10.712
    r_dihedral_angle_3_deg 14.952
    r_dihedral_angle_2_deg 37.632
    r_dihedral_angle_1_deg 6.596
    r_angle_refined_deg 2.22
    r_bond_refined_d 0.018
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1246
    Nucleic Acid Atoms 0
    Heterogen Atoms 45
    Solvent Atoms 194
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DNA
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    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