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Metabolism of multiple glycosaminoglycans by bacteroides thetaiotaomicron is orchestrated by a versatile core genetic locus (BT33494S-sulf)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20 % PEG 3350 and 0.2 M K acetate
20 mg/ml protein
Crystal Properties Matthews coefficient Solvent content 2.11 41.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.905 α = 90 b = 93.911 β = 90 c = 304.086 γ = 90
Symmetry Space Group P 2 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 173 PIXEL DECTRIS PILATUS3 S 6M 2018-02-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.98 Diamond I04
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 2.8 68.98 100 0.976 5.6 7.3 37857
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 2.8 2.92 0.543
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 MOLECULAR REPLACEMENT THROUGHOUT 2.8 68.98 35924 1856 99.89 0.19284 0.18939 0.1979 0.26063 0.2645 RANDOM 33.479
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] -2.03 0.98 1.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.778 r_dihedral_angle_3_deg 17.685 r_dihedral_angle_4_deg 16.254 r_long_range_B_other 12.14 r_long_range_B_refined 12.139 r_dihedral_angle_1_deg 8.346 r_scangle_other 6.156 r_mcangle_it 5.427 r_mcangle_other 5.427 r_scbond_it 4.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.778 r_dihedral_angle_3_deg 17.685 r_dihedral_angle_4_deg 16.254 r_long_range_B_other 12.14 r_long_range_B_refined 12.139 r_dihedral_angle_1_deg 8.346 r_scangle_other 6.156 r_mcangle_it 5.427 r_mcangle_other 5.427 r_scbond_it 4.22 r_scbond_other 4.22 r_mcbond_it 3.617 r_mcbond_other 3.616 r_angle_refined_deg 2.032 r_angle_other_deg 1.332 r_chiral_restr 0.106 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 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 11506 Nucleic Acid Atoms Solvent Atoms 49 Heterogen Atoms 129
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling BALBES phasing