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Crystal structure of the ER alpha ligand binding domain with the agonist ortho-trifluoromethylphenylvinyl estradiol
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 20% PEG 4000, 0.2M Ammonium sulfate, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.052 α = 90 b = 84.22 β = 109.59 c = 58.693 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-2 SI 111 MONOCHROMATOR 2004-08-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 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 1.87 50 92.4 0.08 0.08 6.6 4.7 39661 39661 20.061
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 1.87 1.94 55.2 0.395 0.395 1.738 3 2369
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.94 27.71 36913 36913 1871 96.99 0.161 0.161 0.158 0.216 0.2369 RANDOM 20.061
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] -0.08 -0.01 0.12 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.211 r_dihedral_angle_4_deg 22.581 r_dihedral_angle_3_deg 14.976 r_dihedral_angle_1_deg 5.005 r_scangle_it 3.14 r_scbond_it 2.164 r_angle_refined_deg 1.358 r_mcangle_it 1.194 r_mcbond_it 1.003 r_symmetry_hbond_refined 0.409
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.211 r_dihedral_angle_4_deg 22.581 r_dihedral_angle_3_deg 14.976 r_dihedral_angle_1_deg 5.005 r_scangle_it 3.14 r_scbond_it 2.164 r_angle_refined_deg 1.358 r_mcangle_it 1.194 r_mcbond_it 1.003 r_symmetry_hbond_refined 0.409 r_nbtor_refined 0.305 r_symmetry_vdw_refined 0.232 r_nbd_refined 0.209 r_xyhbond_nbd_refined 0.189 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4007 Nucleic Acid Atoms Solvent Atoms 461 Heterogen Atoms 64
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 HKL-2000 data scaling MOLREP phasing