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Crystal structure of estrogen receptor alpha in complex with receptor degrader 16aa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other in house model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 292 Grid of PEG 3350 vs. MgCl2 with a buffer of Bis-TRIS at pH 6-6.5
Crystal Properties Matthews coefficient Solvent content 1.99 38.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.089 α = 86.05 b = 59.134 β = 74.92 c = 94.18 γ = 63.34
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 CCD RAYONIX MX-300 2015-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.97949 CLSI 08ID-1
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 2.11 30 94.9 0.05 0.067 0.045 9.4 2 51361
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 2.15 2.19 90.9 0.623 0.851 0.576 0.529 1.8
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 in house model 2.1 29.47 48761 2598 89.24 0.24837 0.2475 0.255 0.26503 0.2666 RANDOM 62.522
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] 40.14 -3.73 7.61 -58.16 11.19 18.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.364 r_dihedral_angle_4_deg 17.687 r_dihedral_angle_3_deg 13.893 r_dihedral_angle_1_deg 4.836 r_long_range_B_refined 3.854 r_long_range_B_other 3.854 r_mcangle_it 1.68 r_mcangle_other 1.68 r_scangle_other 1.677 r_angle_refined_deg 1.158
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.364 r_dihedral_angle_4_deg 17.687 r_dihedral_angle_3_deg 13.893 r_dihedral_angle_1_deg 4.836 r_long_range_B_refined 3.854 r_long_range_B_other 3.854 r_mcangle_it 1.68 r_mcangle_other 1.68 r_scangle_other 1.677 r_angle_refined_deg 1.158 r_scbond_it 1.061 r_scbond_other 1.06 r_mcbond_it 1.029 r_mcbond_other 1.029 r_angle_other_deg 0.906 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 6963 Nucleic Acid Atoms Solvent Atoms 45 Heterogen Atoms 195
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling PDB_EXTRACT data extraction HKL-2000 data reduction PHASER phasing