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The Crystal Structure of a human monoclonal antibody (aAb), termed TG10, complexed with a GlcNH2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other TG!0 Apo, same sequence
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 2.4M Ammonium Sulfate
Crystal Properties Matthews coefficient Solvent content 2.6 52.76
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.524 α = 90 b = 90.524 β = 90 c = 207.3 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 EIGER X 16M 2022-09-17 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) 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 1.76 78.4 98.2 0.072 1 28.1 18.3 49758
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.76 1.8 0.632 0.749
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 FOURIER SYNTHESIS THROUGHOUT 1.76 78.4 48642 1025 98.22 0.16482 0.16393 0.1767 0.20622 0.2213 RANDOM 26.763
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] 0.05 0.02 0.05 -0.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.27 r_long_range_B_refined 7.983 r_long_range_B_other 7.982 r_dihedral_angle_1_deg 7.482 r_scangle_other 4.589 r_dihedral_angle_2_deg 4.471 r_scbond_it 3.113 r_scbond_other 3.112 r_mcangle_it 2.884 r_mcangle_other 2.883
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.27 r_long_range_B_refined 7.983 r_long_range_B_other 7.982 r_dihedral_angle_1_deg 7.482 r_scangle_other 4.589 r_dihedral_angle_2_deg 4.471 r_scbond_it 3.113 r_scbond_other 3.112 r_mcangle_it 2.884 r_mcangle_other 2.883 r_mcbond_it 1.969 r_mcbond_other 1.964 r_angle_refined_deg 1.569 r_angle_other_deg 0.577 r_chiral_restr 0.074 r_bond_refined_d 0.009 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3310 Nucleic Acid Atoms Solvent Atoms 423 Heterogen Atoms 53
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling REFMAC phasing