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14-3-3sigma binding to the ERa peptide and compound 19
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4JC3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.095 M HEPES pH=7.1-7.7
0.19 M CaCl2
5% glycerol
24-29% PEG400
Crystal Properties Matthews coefficient Solvent content 2.68 54.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.565 α = 90 b = 112.849 β = 90 c = 62.569 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 4M 2023-07-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-3 0.967697 ESRF MASSIF-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.35 62.57 99.8 0.999 25.2 13.3 64221
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.37 0.897 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.35 45.65 60942 3256 99.75 0.13196 0.13035 0.1454 0.16196 0.1696 RANDOM 19.287
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] -0.28 -0.69 0.96
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 62.314 r_scbond_other 62.314 r_scangle_other 58.573 r_long_range_B_refined 40.049 r_long_range_B_other 39.741 r_dihedral_angle_2_deg 30.406 r_mcangle_it 20.805 r_mcangle_other 20.797 r_mcbond_it 19.914 r_mcbond_other 19.914
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 62.314 r_scbond_other 62.314 r_scangle_other 58.573 r_long_range_B_refined 40.049 r_long_range_B_other 39.741 r_dihedral_angle_2_deg 30.406 r_mcangle_it 20.805 r_mcangle_other 20.797 r_mcbond_it 19.914 r_mcbond_other 19.914 r_rigid_bond_restr 16.621 r_dihedral_angle_3_deg 13.059 r_dihedral_angle_1_deg 4.557 r_angle_refined_deg 1.303 r_angle_other_deg 0.516 r_chiral_restr 0.061 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1899 Nucleic Acid Atoms Solvent Atoms 355 Heterogen Atoms 34
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing