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Crystal structure of SpaB basal pilin from Lactobacillus rhamnosus GG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.2 M Magnesium chloride, 0.1 M MES pH 6.5, and 30% (w/v) PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.17 43.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.526 α = 90 b = 51.526 β = 90 c = 408.208 γ = 120
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 2016-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.97872 ESRF BM14
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 2.39 43.59 93.2 0.045 0.052 0.026 0.99 15 3.7 41158 55.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.39 2.47 72.2 0.42 0.52 0.29 0.71 2 2.8
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 THROUGHOUT 2.39 43.59 39014 2145 86.2 0.19228 0.19036 0.1956 0.22789 0.2343 RANDOM 69.271
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] 17.85 17.85 -35.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.184 r_dihedral_angle_3_deg 15.961 r_dihedral_angle_4_deg 11.271 r_dihedral_angle_1_deg 6.241 r_long_range_B_refined 4.023 r_long_range_B_other 4.021 r_mcangle_it 2.359 r_mcangle_other 2.359 r_scangle_other 1.698 r_mcbond_it 1.442
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.184 r_dihedral_angle_3_deg 15.961 r_dihedral_angle_4_deg 11.271 r_dihedral_angle_1_deg 6.241 r_long_range_B_refined 4.023 r_long_range_B_other 4.021 r_mcangle_it 2.359 r_mcangle_other 2.359 r_scangle_other 1.698 r_mcbond_it 1.442 r_mcbond_other 1.442 r_angle_refined_deg 1.276 r_scbond_it 1.192 r_scbond_other 1.136 r_angle_other_deg 1.101 r_chiral_restr 0.034 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 7188 Nucleic Acid Atoms Solvent Atoms 75 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing