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Crystal Structure of the Estrogen Receptor Alpha Ligand Binding Domain Mutant 537S Complexed with Genistein
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 8 298 VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 8.0
Crystal Properties Matthews coefficient Solvent content 1.92 35.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.668 α = 90 b = 77.957 β = 109.05 c = 58 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 ADSC QUANTUM 315 Rosenbaum-Rock vertical focusing mirror 2004-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97934 APS 19-ID
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 1.85 50 97 0.049 0.049 20.78 3.1 38560 38560 26.39
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 1.85 1.901 76.29 0.367 0.367 1.79 2.4 2204
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 1.85 19.89 38516 38516 1935 96.85 0.214 0.211 0.2111 0.264 0.2655 RANDOM 48.196
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] 0.16 -0.01 -0.18 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.498 r_dihedral_angle_4_deg 21.92 r_dihedral_angle_3_deg 17.891 r_scangle_it 11.112 r_scbond_it 8.369 r_mcangle_it 4.979 r_dihedral_angle_1_deg 4.814 r_mcbond_it 3.646 r_angle_refined_deg 1.278 r_nbtor_refined 0.316
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.498 r_dihedral_angle_4_deg 21.92 r_dihedral_angle_3_deg 17.891 r_scangle_it 11.112 r_scbond_it 8.369 r_mcangle_it 4.979 r_dihedral_angle_1_deg 4.814 r_mcbond_it 3.646 r_angle_refined_deg 1.278 r_nbtor_refined 0.316 r_symmetry_vdw_refined 0.289 r_nbd_refined 0.244 r_xyhbond_nbd_refined 0.208 r_symmetry_hbond_refined 0.194 r_chiral_restr 0.086 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3882 Nucleic Acid Atoms Solvent Atoms 70 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing