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Surface glycan-binding protein A from Bacteroides thetaiotaomicron in complex with laminarihexaose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 295 0.1 M bis-tris pH 6.5,
0.2 M lithium sulfate,
25 % (w/v) PEG3350
Crystal Properties Matthews coefficient Solvent content 2.28 46.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.024 α = 90 b = 72.937 β = 105.644 c = 101.484 γ = 90
Symmetry Space Group I 1 2 1
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 PILATUS3 6M 2020-11-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97946 SSRL BL12-2
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 2.05 39.45 99 0.992 8 7 33221
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 2.05 2.11 0.668
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION SAD FREE R-VALUE 2.05 39.447 33221 1639 98.778 0.159 0.1569 0.157 0.2041 0.2042 20.868
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] 0.815 -0.473 -0.018 -0.461
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.043 r_dihedral_angle_4_deg 18.266 r_dihedral_angle_3_deg 13.593 r_dihedral_angle_1_deg 6.586 r_lrange_it 4.617 r_lrange_other 4.583 r_scangle_it 3.628 r_scangle_other 3.624 r_angle_other_deg 2.682 r_mcangle_other 2.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.043 r_dihedral_angle_4_deg 18.266 r_dihedral_angle_3_deg 13.593 r_dihedral_angle_1_deg 6.586 r_lrange_it 4.617 r_lrange_other 4.583 r_scangle_it 3.628 r_scangle_other 3.624 r_angle_other_deg 2.682 r_mcangle_other 2.61 r_mcangle_it 2.609 r_scbond_it 2.304 r_scbond_other 2.302 r_mcbond_it 1.744 r_mcbond_other 1.741 r_angle_refined_deg 1.516 r_nbd_other 0.248 r_symmetry_nbd_refined 0.24 r_symmetry_nbd_other 0.211 r_nbd_refined 0.197 r_nbtor_refined 0.171 r_xyhbond_nbd_refined 0.156 r_symmetry_xyhbond_nbd_refined 0.124 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.077 r_bond_other_d 0.036 r_gen_planes_other 0.012 r_bond_refined_d 0.009 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3793 Nucleic Acid Atoms Solvent Atoms 295 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing