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Crystal structure of human estrogen receptor alpha LBD in complex with GRIP peptide and estriol
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZKY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 289 0.2 M Lithium sulfate monohydrate, 0.1 M Tris pH 8.5, 25% w/v Polyethylene glycol 3,350, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.03 39.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.528 α = 90 b = 81.865 β = 111.13 c = 58.886 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 77 CCD ADSC QUANTUM 315 mirrors 2010-03-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.979 APS 19-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 2.05 50 86 0.13 5.6 1.8 61658 53026
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 2.05 2.09 37.6 0.51 1 1.1 1158
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 1ZKY 2.05 50 28260 1500 95.1 0.19851 0.19623 0.2023 0.24149 0.2467 RANDOM 37.791
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] 1.37 0.25 -0.09 -1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.513 r_dihedral_angle_4_deg 19.951 r_dihedral_angle_3_deg 13.563 r_dihedral_angle_1_deg 7.358 r_scangle_it 5.172 r_scbond_it 3.26 r_mcangle_it 1.984 r_angle_refined_deg 1.252 r_mcbond_it 1.083 r_angle_other_deg 0.786
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.513 r_dihedral_angle_4_deg 19.951 r_dihedral_angle_3_deg 13.563 r_dihedral_angle_1_deg 7.358 r_scangle_it 5.172 r_scbond_it 3.26 r_mcangle_it 1.984 r_angle_refined_deg 1.252 r_mcbond_it 1.083 r_angle_other_deg 0.786 r_mcbond_other 0.29 r_chiral_restr 0.07 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 4182 Nucleic Acid Atoms Solvent Atoms 80 Heterogen Atoms 46
Software Software Software Name Purpose HKL-3000 data collection PHASER phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling