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Crystal Structure of the Estrogen Receptor Alpha Ligand Binding Domain Complexed with a Chloro-Indazole Compound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ERD PDB entry 3ERD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 41.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.053 α = 90 b = 84.266 β = 108.48 c = 58.213 γ = 90
Symmetry Space Group P 1 21 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 CCD SBC mirrors M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.97934 APS 19-BM
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.35 50 95.7 0.097 0.097 4.7 3.8 20938 20938 30.69
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.43 93.6 0.415 0.415 1.8 3.2 2028
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 (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 3ERD 2.39 33.37 17913 17913 920 87.46 0.241 0.238 0.2416 0.296 0.2997 RANDOM 24.294
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] 0.64 1.03 0.41 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.83 r_dihedral_angle_4_deg 18.369 r_dihedral_angle_3_deg 16.721 r_dihedral_angle_1_deg 5.167 r_scangle_it 1.613 r_angle_refined_deg 1.341 r_scbond_it 1.134 r_angle_other_deg 1.025 r_mcangle_it 0.972 r_mcbond_it 0.881
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.83 r_dihedral_angle_4_deg 18.369 r_dihedral_angle_3_deg 16.721 r_dihedral_angle_1_deg 5.167 r_scangle_it 1.613 r_angle_refined_deg 1.341 r_scbond_it 1.134 r_angle_other_deg 1.025 r_mcangle_it 0.972 r_mcbond_it 0.881 r_xyhbond_nbd_refined 0.67 r_symmetry_vdw_refined 0.462 r_symmetry_vdw_other 0.289 r_nbd_refined 0.206 r_nbd_other 0.194 r_nbtor_refined 0.171 r_symmetry_hbond_refined 0.134 r_chiral_restr 0.105 r_mcbond_other 0.101 r_nbtor_other 0.088 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3982 Nucleic Acid Atoms Solvent Atoms 216 Heterogen Atoms 36
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction MOLREP phasing