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Crystal structure of Estrogen Related Receptor-3 (ERR-gamma) ligand binding domaind with tamoxifen analog GSK5182
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other Unliganded ERRgamma structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 0.2M sodium Citrate, 20% PEG3350, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.82 56.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.876 α = 90 b = 75.776 β = 104.84 c = 185.092 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 CCD MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.3 19.94 87.5 0.057 3.2 63796 55805 -3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Unliganded ERRgamma structure 2.3 19.94 55718 54021 1697 87.47 0.18841 0.18841 0.1866 0.24694 RANDOM 53.442
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] 0.95 -0.46 -0.88 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.12 r_dihedral_angle_3_deg 15.998 r_dihedral_angle_4_deg 15.902 r_dihedral_angle_1_deg 5.57 r_scangle_it 1.588 r_angle_refined_deg 1.183 r_scbond_it 1.054 r_angle_other_deg 0.797 r_mcangle_it 0.663 r_mcbond_it 0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.12 r_dihedral_angle_3_deg 15.998 r_dihedral_angle_4_deg 15.902 r_dihedral_angle_1_deg 5.57 r_scangle_it 1.588 r_angle_refined_deg 1.183 r_scbond_it 1.054 r_angle_other_deg 0.797 r_mcangle_it 0.663 r_mcbond_it 0.45 r_symmetry_hbond_refined 0.233 r_symmetry_vdw_other 0.223 r_nbd_refined 0.198 r_nbtor_refined 0.171 r_nbd_other 0.167 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.154 r_nbtor_other 0.086 r_mcbond_other 0.078 r_chiral_restr 0.069 r_xyhbond_nbd_other 0.048 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8750 Nucleic Acid Atoms Solvent Atoms 412 Heterogen Atoms 155
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling AMoRE phasing