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Crystal Structure of the SrpA Adhesin from Streptococcus sanguinis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 295 100 mM Na cacodylate, 0.2 M Ca(CH3CO2)2, 18% PEG 8000. Fully formed crystals were soaked in 2 mM K2OsO4, 5% DMSO overnight 2 VAPOR DIFFUSION, SITTING DROP 6.5 295 100 mM Na cacodylate, 0.2 M Ca(CH3CO2)2, 18% PEG 8000. Fully formed crystals were soaked in 2 mM K2OsO4, 5% DMSO overnight
Crystal Properties Matthews coefficient Solvent content 2.92 57.93 2.92 57.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 174.522 α = 90 b = 46.769 β = 102.72 c = 64.761 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2015-02-19 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD MARMOSAIC 300 mm CCD 2015-03-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.979 APS 21-ID-F 2 SYNCHROTRON APS BEAMLINE 21-ID-D 1.140 APS 21-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.77 50 99.6 0.164 0.176 0.071 9.5 7.3 49646 22.46
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.77 1.8 98 0.534 0.64 5.6 2455
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 1.8 42.56 1.35 47035 2334 98.79 0.1765 0.1749 0.1749 0.2073 0.2075 29.0813
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.941 f_angle_d 0.906 f_chiral_restr 0.063 f_bond_d 0.008 f_plane_restr 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3047 Nucleic Acid Atoms Solvent Atoms 539 Heterogen Atoms 39
Software Software Software Name Purpose PHENIX refinement HKL-2000 data scaling SOLVE phasing PDB_EXTRACT data extraction HKL-2000 data reduction