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Crystal Structure of Estrogen Receptor alpha-lasofoxifene complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ERT PDB entry 3ERT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.7 295 0.1 M NaHEPES, 0.5 M NaCl, 6% ethylene glycol, 10-12%PEG 8000, 5mM DTT, pH 6.7, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.4 48.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.306 α = 90 b = 58.306 β = 90 c = 275.033 γ = 120
Symmetry Space Group P 65 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 IMAGE PLATE RIGAKU RAXIS IIC osmic 1999-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 50.64 94.5 0.073 15 3.25 19969 18869 4 2 41
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 87.5 0.651 1.61
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 PDB entry 3ERT 2 50.64 18800 976 94.64 0.202 0.199 0.2054 0.269 0.2713 RANDOM 39.196
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] 0.74 0.37 0.74 -1.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.154 r_dihedral_angle_4_deg 18.248 r_dihedral_angle_3_deg 16.92 r_dihedral_angle_1_deg 6.001 r_scangle_it 3.528 r_scbond_it 2.524 r_mcangle_it 1.841 r_angle_refined_deg 1.717 r_mcbond_it 1.128 r_angle_other_deg 0.961
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.154 r_dihedral_angle_4_deg 18.248 r_dihedral_angle_3_deg 16.92 r_dihedral_angle_1_deg 6.001 r_scangle_it 3.528 r_scbond_it 2.524 r_mcangle_it 1.841 r_angle_refined_deg 1.717 r_mcbond_it 1.128 r_angle_other_deg 0.961 r_symmetry_hbond_refined 0.549 r_symmetry_vdw_refined 0.35 r_mcbond_other 0.274 r_symmetry_vdw_other 0.246 r_nbd_refined 0.244 r_xyhbond_nbd_refined 0.241 r_nbd_other 0.185 r_nbtor_refined 0.181 r_chiral_restr 0.112 r_nbtor_other 0.091 r_bond_refined_d 0.02 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 1939 Nucleic Acid Atoms Solvent Atoms 161 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction SCALEPACK data scaling AMoRE phasing