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Discovery of Potent, Highly Selective and Efficacious SMARCA2 Degraders - Compound 13
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QY4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277.15 0.01 M ZnCl2
0.01 M cobalt (III) hexamine chloride
0.1 M HEPES pH 6.1
19% v/v PEG 6000
8% v/v ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.28 46.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.84 α = 90 b = 61.84 β = 90 c = 89.16 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 95 PIXEL DECTRIS PILATUS 6M 2022-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 1.000 SPring-8 BL45XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.71 45.95 99.3 0.203 0.217 0.075 0.994 11.9 7.4 40985
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 1.71 1.74 91.9 0.627 0.711 0.323 0.751 4.4
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 1.71 45.95 38864 2082 99.33 0.18362 0.18193 0.1938 0.21494 0.225 RANDOM 17.53
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] -0.01 -0.01 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.82 r_dihedral_angle_2_deg 5.921 r_dihedral_angle_1_deg 5.497 r_long_range_B_refined 5.368 r_long_range_B_other 5.329 r_scangle_other 4.36 r_scbond_it 2.836 r_scbond_other 2.835 r_mcangle_it 2.674 r_mcangle_other 2.674
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.82 r_dihedral_angle_2_deg 5.921 r_dihedral_angle_1_deg 5.497 r_long_range_B_refined 5.368 r_long_range_B_other 5.329 r_scangle_other 4.36 r_scbond_it 2.836 r_scbond_other 2.835 r_mcangle_it 2.674 r_mcangle_other 2.674 r_mcbond_it 1.769 r_mcbond_other 1.765 r_angle_refined_deg 1.563 r_angle_other_deg 0.526 r_chiral_restr 0.08 r_gen_planes_refined 0.012 r_bond_refined_d 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2751 Nucleic Acid Atoms Solvent Atoms 274 Heterogen Atoms 102
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction REFMAC phasing