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Ternary complex structure of TRIM21 (PRYSPRY) and BRD4 (BD1) bound to PROTAC 1b
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 293 0.1 M Bis-Tris
25% PEG3350
Crystal Properties Matthews coefficient Solvent content 2 38.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.515 α = 90 b = 41.984 β = 101.648 c = 112.945 γ = 90
Symmetry Space Group I 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 PIXEL DECTRIS EIGER2 XE 16M 2026-03-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
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 2.7 34.469 100 0.229 0.248 0.093 0.987 6.8 7 7966
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 2.7 2.83 100 0.82 0.882 0.324 0.85 7.3
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.7 34.469 7964 349 99.912 0.218 0.216 0.2207 0.2601 0.2663 34.691
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] -2.916 2.224 0.269 1.594
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.823 r_dihedral_angle_6_deg 12.745 r_dihedral_angle_1_deg 7.446 r_lrange_it 4.721 r_lrange_other 4.721 r_dihedral_angle_2_deg 4.578 r_mcangle_other 3.068 r_mcangle_it 3.066 r_scangle_it 2.83 r_scangle_other 2.829
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.823 r_dihedral_angle_6_deg 12.745 r_dihedral_angle_1_deg 7.446 r_lrange_it 4.721 r_lrange_other 4.721 r_dihedral_angle_2_deg 4.578 r_mcangle_other 3.068 r_mcangle_it 3.066 r_scangle_it 2.83 r_scangle_other 2.829 r_mcbond_it 1.82 r_mcbond_other 1.814 r_scbond_it 1.614 r_scbond_other 1.614 r_angle_refined_deg 1.104 r_angle_other_deg 0.437 r_nbd_other 0.214 r_nbd_refined 0.198 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.187 r_xyhbond_nbd_refined 0.155 r_symmetry_xyhbond_nbd_refined 0.123 r_symmetry_nbd_refined 0.116 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.054 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2346 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms 69
Software Software Software Name Purpose REFMAC refinement Aimless data scaling xia2 data reduction PHASER phasing PDB_EXTRACT data extraction