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A single sulfatase is required for metabolism of colonic mucin O-glycans and intestinal colonization by a symbiotic human gut bacterium (BT1622-S1_20)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other BT1624
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 20 % PEG 3350, 0.2 M sodium citrate
30 mg/ml BT1622 with 100 mM GalNAc.
Crystal Properties Matthews coefficient Solvent content 2.98 58.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.246 α = 90 b = 83.246 β = 90 c = 390.341 γ = 90
Symmetry Space Group P 43 21 2
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 EIGER X 16M 2020-09-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.98 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.3 70.221 100 0.999 9.7 1.9 62514
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.36 0.84
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE BT1624 2.3 70.221 62452 3080 99.898 0.212 0.2111 0.2156 0.2347 0.2353 58.047
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] 1.07 1.07 -2.141
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.647 r_dihedral_angle_4_deg 16.828 r_dihedral_angle_3_deg 14.117 r_dihedral_angle_1_deg 7.074 r_lrange_it 3.513 r_lrange_other 3.509 r_scangle_it 1.673 r_scangle_other 1.673 r_mcangle_it 1.492 r_mcangle_other 1.492
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.647 r_dihedral_angle_4_deg 16.828 r_dihedral_angle_3_deg 14.117 r_dihedral_angle_1_deg 7.074 r_lrange_it 3.513 r_lrange_other 3.509 r_scangle_it 1.673 r_scangle_other 1.673 r_mcangle_it 1.492 r_mcangle_other 1.492 r_angle_refined_deg 1.349 r_angle_other_deg 1.162 r_scbond_it 1.004 r_scbond_other 1.004 r_mcbond_it 0.905 r_mcbond_other 0.905 r_nbd_other 0.244 r_nbd_refined 0.188 r_symmetry_nbd_refined 0.183 r_symmetry_nbd_other 0.172 r_nbtor_refined 0.161 r_xyhbond_nbd_refined 0.136 r_symmetry_xyhbond_nbd_refined 0.134 r_metal_ion_refined 0.074 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.06 r_ncsr_local_group_1 0.05 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7570 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 51
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing