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Molecular and structural characterization of the PezAT chromosomal toxin-antitoxin system of the human pathogen Streptococcus pneumoniae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 12.5-15% (v/v) iso-propanol, 100 mM MES-NaOH, 6% (v/v) dioxane (30% (v/v)), pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.74 55.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.52 α = 90 b = 102.86 β = 90 c = 254.44 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 CCD MARMOSAIC 225 mm CCD 2006-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3.2 47.67 95.3 0.06 20.8 5.7 34352 34352 3 76.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.2 3.3 85.5 0.387 3.1 4708
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 3.2 47.67 34352 33459 1726 100 0.21692 0.21368 0.2111 0.27732 0.2735 RANDOM 91.268
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] -0.62 -0.23 0.85
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.723 r_dihedral_angle_3_deg 19.17 r_dihedral_angle_4_deg 15.836 r_dihedral_angle_1_deg 5.151 r_scangle_it 1.164 r_angle_refined_deg 1.059 r_scbond_it 0.668 r_mcangle_it 0.648 r_mcbond_it 0.358 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.723 r_dihedral_angle_3_deg 19.17 r_dihedral_angle_4_deg 15.836 r_dihedral_angle_1_deg 5.151 r_scangle_it 1.164 r_angle_refined_deg 1.059 r_scbond_it 0.668 r_mcangle_it 0.648 r_mcbond_it 0.358 r_nbtor_refined 0.303 r_symmetry_vdw_refined 0.218 r_nbd_refined 0.206 r_xyhbond_nbd_refined 0.135 r_symmetry_hbond_refined 0.121 r_chiral_restr 0.07 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11093 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling SHELXD phasing