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Crystal structure of major pilin PilB from Streptococcus sanguinis - SeMet derivative
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 295 0.2 M Potassium acetate, 0.1 M Hepes pH 7.0, 5% w/v polyvinyl alcohol.
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.78 α = 90 b = 58.772 β = 90 c = 214.108 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 100 PIXEL DECTRIS PILATUS 6M 2019-09-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 0.9803 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) CC (Half) 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 2.399 56.677 98.2 0.054 0.997 15.7 46.5 19213
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 2.399 2.447 86.3 0.265 0.918 3.5 46.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 FREE R-VALUE 2.4 45.41 18274 934 98.21 0.22828 0.22615 0.2379 0.26939 0.2802 RANDOM 18.328
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] -0.93 -0.18 1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.996 r_dihedral_angle_1_deg 6.909 r_dihedral_angle_2_deg 5.29 r_long_range_B_refined 3.296 r_long_range_B_other 3.23 r_scangle_other 1.365 r_mcangle_it 0.986 r_mcangle_other 0.986 r_angle_refined_deg 0.973 r_scbond_it 0.772
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.996 r_dihedral_angle_1_deg 6.909 r_dihedral_angle_2_deg 5.29 r_long_range_B_refined 3.296 r_long_range_B_other 3.23 r_scangle_other 1.365 r_mcangle_it 0.986 r_mcangle_other 0.986 r_angle_refined_deg 0.973 r_scbond_it 0.772 r_scbond_other 0.771 r_mcbond_it 0.596 r_mcbond_other 0.554 r_angle_other_deg 0.315 r_chiral_restr 0.038 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3176 Nucleic Acid Atoms Solvent Atoms 146 Heterogen Atoms 13
Software Software Software Name Purpose XDS data reduction CRANK2 phasing Coot model building REFMAC refinement autoPROC data reduction