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Novel Anti-Mesothelin Antibodies Enable Crystallography of the Intact Mesothelin Ectodo- main and Engineering of Potent, T cell-engaging Bispecific Therapeutics
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4F33
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 tris 8.0, zinc chloride, ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 5.37 77.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 185.303 α = 90 b = 204.175 β = 90 c = 123.114 γ = 90
Symmetry Space Group C 2 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 PILATUS 6M 2019-03-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 4.25 50 84.7 0.121 0.151 0.088 12.6 2.6 13542
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 4.25 4.32 85.5 0.784 0.979 0.576 0.263 2.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 4f33 4.31 45.78 12857 667 83.95 0.2463 0.2435 0.2405 0.2997 0.2886 RANDOM 263.302
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] -5.08 -7.25 12.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.942 r_dihedral_angle_3_deg 18.432 r_dihedral_angle_4_deg 16.47 r_dihedral_angle_1_deg 7.863 r_angle_refined_deg 1.908 r_angle_other_deg 1.166 r_chiral_restr 0.06 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.942 r_dihedral_angle_3_deg 18.432 r_dihedral_angle_4_deg 16.47 r_dihedral_angle_1_deg 7.863 r_angle_refined_deg 1.908 r_angle_other_deg 1.166 r_chiral_restr 0.06 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6984 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing