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The Crystal Structure of a human monoclonal antibody (aAb), termed TG10, used to study poly-N-acetyl-glucosamine broadly expressed in biofilm-forming pathogenclonal antibody
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7N3G sequence identity is high
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 3.5 293 2.4 M Ammonium Sulfate
Crystal Properties Matthews coefficient Solvent content 2.61 52.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.254 α = 90 b = 90.254 β = 90 c = 208.83 γ = 120
Symmetry Space Group P 65 2 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 EIGER2 X 16M 2021-10-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.4 50 97.2 0.73 40.25 18 96536
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 0.884
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 1.4 45.17 86851 2750 90.35 0.13652 0.13546 0.1354 0.16999 0.1717 RANDOM 16.233
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] -0.59 -0.29 -0.59 1.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.537 r_dihedral_angle_1_deg 7.376 r_dihedral_angle_2_deg 5.633 r_long_range_B_refined 5.161 r_rigid_bond_restr 5.015 r_long_range_B_other 4.38 r_mcangle_other 2.946 r_mcangle_it 2.936 r_scangle_other 2.633 r_mcbond_it 2.145
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 11.537 r_dihedral_angle_1_deg 7.376 r_dihedral_angle_2_deg 5.633 r_long_range_B_refined 5.161 r_rigid_bond_restr 5.015 r_long_range_B_other 4.38 r_mcangle_other 2.946 r_mcangle_it 2.936 r_scangle_other 2.633 r_mcbond_it 2.145 r_mcbond_other 2.127 r_scbond_it 2.11 r_scbond_other 1.948 r_angle_refined_deg 1.594 r_angle_other_deg 0.578 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3310 Nucleic Acid Atoms Solvent Atoms 603 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling PHASER phasing