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14-3-3sigma binding to the ERa peptide and compound 40
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 2.72 54.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.988 α = 90 b = 113.074 β = 90 c = 62.904 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 66.9 86 0.999 19.9 12.4 62567
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 0.842 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 1.3 34.66 59353 3187 85.96 0.13152 0.13005 0.1412 0.15826 0.1633 RANDOM 18.908
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] 0.41 1.32 -1.72
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 41 r_scbond_other 40.999 r_scangle_other 40.74 r_long_range_B_refined 35.859 r_dihedral_angle_2_deg 35.512 r_long_range_B_other 35.382 r_dihedral_angle_3_deg 13.084 r_mcangle_it 11.11 r_mcangle_other 11.106 r_rigid_bond_restr 10.718
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 41 r_scbond_other 40.999 r_scangle_other 40.74 r_long_range_B_refined 35.859 r_dihedral_angle_2_deg 35.512 r_long_range_B_other 35.382 r_dihedral_angle_3_deg 13.084 r_mcangle_it 11.11 r_mcangle_other 11.106 r_rigid_bond_restr 10.718 r_mcbond_it 9.713 r_mcbond_other 9.713 r_dihedral_angle_1_deg 4.813 r_angle_refined_deg 1.212 r_angle_other_deg 0.512 r_chiral_restr 0.06 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 283 Heterogen Atoms 34
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing