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Design and synthesis of novel STING agonist antibody- drug conjugates.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7X9Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 293 magnesium chloride, PEG 8000, Tris
Crystal Properties Matthews coefficient Solvent content 2.63 53.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.475 α = 90 b = 76.236 β = 91.2 c = 33.531 γ = 90
Symmetry Space Group C 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 CCD MARMOSAIC 225 mm CCD 2025-01-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL02U1 0.979137 SSRF BL02U1
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 1.55 58.02 96.46 0.0271 0.996 16.22 2 31523 21.48
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 1.55 1.605 0.606
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 1.55 58.02 29911 1600 96.55 0.19089 0.18859 0.1897 0.23425 0.2343 RANDOM 30.523
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] 0.37 -0.14 0.61 -0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.777 r_dihedral_angle_4_deg 15.246 r_dihedral_angle_3_deg 15.071 r_long_range_B_refined 8.419 r_long_range_B_other 8.382 r_dihedral_angle_1_deg 6.792 r_scangle_other 6.143 r_mcangle_it 5.382 r_mcangle_other 5.379 r_scbond_it 4.111
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.777 r_dihedral_angle_4_deg 15.246 r_dihedral_angle_3_deg 15.071 r_long_range_B_refined 8.419 r_long_range_B_other 8.382 r_dihedral_angle_1_deg 6.792 r_scangle_other 6.143 r_mcangle_it 5.382 r_mcangle_other 5.379 r_scbond_it 4.111 r_scbond_other 4.108 r_mcbond_other 3.636 r_mcbond_it 3.633 r_angle_refined_deg 2.393 r_angle_other_deg 1.214 r_chiral_restr 0.146 r_bond_refined_d 0.025 r_gen_planes_refined 0.013 r_bond_other_d 0.003 r_gen_planes_other 0.002 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 1381 Nucleic Acid Atoms Solvent Atoms 102 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement DIALS data reduction DIALS data scaling PHASER phasing