☰ Navigation Tabs
A single sulfatase is required for metabolism of colonic mucin O-glycans and intestinal colonization by a symbiotic human gut bacterium (BT1636-S1_20)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AN1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 40 % MPD, 0.1 M sodium cacodylate with a protein concentration of 20 mg/ml and the ligand concentration (3S-LewisA) of 20 mM.
Crystal Properties Matthews coefficient Solvent content 2.37 48.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.175 α = 90 b = 79.196 β = 90 c = 91.1 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 Bruker PHOTON III 2021-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 LIQUID ANODE BRUKER METALJET 1.34
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 18.523 98.8 0.968 4.8 4 24826
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 2.38 0.76 1.6
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 7AN1 2.3 18.52 24780 1269 98.588 0.241 0.2381 0.2466 0.2884 0.2983 19.149
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] 2.056 0.15 -2.206
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.649 r_dihedral_angle_4_deg 15.25 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 7.352 r_lrange_it 4.101 r_lrange_other 4.068 r_mcangle_other 2.044 r_mcangle_it 2.043 r_scangle_it 1.904 r_scangle_other 1.904
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.649 r_dihedral_angle_4_deg 15.25 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 7.352 r_lrange_it 4.101 r_lrange_other 4.068 r_mcangle_other 2.044 r_mcangle_it 2.043 r_scangle_it 1.904 r_scangle_other 1.904 r_angle_refined_deg 1.533 r_mcbond_it 1.25 r_mcbond_other 1.245 r_angle_other_deg 1.176 r_scbond_it 1.172 r_scbond_other 1.172 r_symmetry_nbd_refined 0.254 r_xyhbond_nbd_refined 0.186 r_nbd_refined 0.184 r_symmetry_nbd_other 0.176 r_nbd_other 0.167 r_nbtor_refined 0.163 r_metal_ion_refined 0.115 r_symmetry_nbtor_other 0.072 r_symmetry_xyhbond_nbd_refined 0.072 r_chiral_restr 0.067 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3869 Nucleic Acid Atoms Solvent Atoms 179 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement SAINT data reduction SAINT data scaling PHASER phasing