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14-3-3sigma binding to the ERa peptide and compound 41
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 2.71 54.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.875 α = 90 b = 113.008 β = 90 c = 62.923 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 9M 2024-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873128 ESRF ID23-2
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 1.3 45.85 99.7 0.999 13.9 12.5 72471
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 1.3 1.32 0.525 1.3
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 1.3 45.85 68758 3692 99.6 0.14294 0.14131 0.1524 0.17205 0.1763 RANDOM 22.43
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] 1.47 -2.66 1.19
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 49.473 r_scbond_other 49.473 r_dihedral_angle_2_deg 45.653 r_scangle_other 44.521 r_long_range_B_refined 37.12 r_long_range_B_other 37.03 r_rigid_bond_restr 14.622 r_dihedral_angle_3_deg 14.587 r_mcangle_it 13.3 r_mcangle_other 13.297
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 49.473 r_scbond_other 49.473 r_dihedral_angle_2_deg 45.653 r_scangle_other 44.521 r_long_range_B_refined 37.12 r_long_range_B_other 37.03 r_rigid_bond_restr 14.622 r_dihedral_angle_3_deg 14.587 r_mcangle_it 13.3 r_mcangle_other 13.297 r_mcbond_it 12.135 r_mcbond_other 12.135 r_dihedral_angle_1_deg 4.764 r_angle_refined_deg 1.318 r_angle_other_deg 0.559 r_chiral_restr 0.068 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 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 297 Heterogen Atoms 35
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing