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Metabolism of multiple glycosaminoglycans by bacteroides thetaiotaomicron is orchestrated by a versatile core genetic locus (BT33336S-sulf)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30 % PEG 4000, 200 mM MgCl2, and 0.1 M Tris, pH 8.5.
20m/gml protein and 10 mM GlaNAc6S
Crystal Properties Matthews coefficient Solvent content 2.01 38.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.4 α = 90 b = 86.4 β = 90 c = 122.21 γ = 90
Symmetry Space Group P 41 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 173 PIXEL DECTRIS PILATUS3 S 6M 2019-01-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.98 Diamond I24
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 1.98 70.65 100 0.998 11 14.2 32979
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 1.98 2.03 0.561
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.98 70.65 31519 1396 100 0.18249 0.1805 0.22364 0.2143 RANDOM 28.89
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] -0.08 -0.08 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.889 r_dihedral_angle_4_deg 18.983 r_dihedral_angle_3_deg 13.672 r_dihedral_angle_1_deg 7.511 r_long_range_B_other 5.178 r_long_range_B_refined 5.118 r_scangle_other 3.984 r_mcangle_it 2.845 r_mcangle_other 2.844 r_scbond_other 2.748
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.889 r_dihedral_angle_4_deg 18.983 r_dihedral_angle_3_deg 13.672 r_dihedral_angle_1_deg 7.511 r_long_range_B_other 5.178 r_long_range_B_refined 5.118 r_scangle_other 3.984 r_mcangle_it 2.845 r_mcangle_other 2.844 r_scbond_other 2.748 r_scbond_it 2.747 r_mcbond_it 2.047 r_mcbond_other 2.043 r_angle_refined_deg 1.531 r_angle_other_deg 1.344 r_chiral_restr 0.069 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 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 3664 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing