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Crystal structure of a domain of the putative hemolysin from Streptococcus mutans UA159
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 0.1M Hepes pH 7.5, 0.05M MgCl2, 30% PEG MME350, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.04 39.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.49 α = 90 b = 40.598 β = 91.58 c = 57.63 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 ADSC QUANTUM 315 mirrors 2007-06-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97940 APS 19-ID
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 1.5 57.64 98.72 0.074 20.4 12230 12082 2 12
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) 1.5 1.539 92.53 0.245 4.3 3.2
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 1.5 57.64 12082 12082 625 98.79 0.18182 0.17887 0.1816 0.23684 0.234 RANDOM 11.825
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] -0.16 0.48 0.75 -0.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.341 r_dihedral_angle_4_deg 14.776 r_dihedral_angle_3_deg 12.206 r_dihedral_angle_1_deg 5.734 r_scangle_it 5.405 r_sphericity_free 5.089 r_scbond_it 4.056 r_sphericity_bonded 3.078 r_mcangle_it 2.283 r_rigid_bond_restr 2.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.341 r_dihedral_angle_4_deg 14.776 r_dihedral_angle_3_deg 12.206 r_dihedral_angle_1_deg 5.734 r_scangle_it 5.405 r_sphericity_free 5.089 r_scbond_it 4.056 r_sphericity_bonded 3.078 r_mcangle_it 2.283 r_rigid_bond_restr 2.109 r_mcbond_it 1.747 r_angle_refined_deg 1.477 r_angle_other_deg 0.932 r_mcbond_other 0.677 r_symmetry_vdw_other 0.384 r_symmetry_vdw_refined 0.268 r_nbd_refined 0.252 r_nbd_other 0.204 r_xyhbond_nbd_refined 0.183 r_nbtor_refined 0.171 r_symmetry_hbond_refined 0.169 r_chiral_restr 0.11 r_nbtor_other 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 705 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling MLPHARE phasing