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Ternary structure of 14-3-3 sigma, ARAF phosphopeptide (pS214) and compound 79 (1124379)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IQJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 PEG4000, HEPES, CaCl2, glycerol
Crystal Properties Matthews coefficient Solvent content 3.25 62.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.576 α = 90 b = 150.225 β = 90 c = 76.816 γ = 90
Symmetry Space Group C 2 2 2
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 1.91 57.76 99.9 0.998 19.8 13.5 58185
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 1.91 1.95 0.631 1.5
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 1.91 57.76 55234 2950 99.84 0.24141 0.23981 0.2196 0.27206 0.2564 RANDOM 40.795
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] 1.48 -0.46 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.855 r_dihedral_angle_4_deg 21.371 r_dihedral_angle_3_deg 15.765 r_long_range_B_refined 8.943 r_long_range_B_other 8.892 r_scangle_other 7.003 r_dihedral_angle_1_deg 5.249 r_mcangle_it 5.026 r_mcangle_other 5.025 r_scbond_other 5.025
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.855 r_dihedral_angle_4_deg 21.371 r_dihedral_angle_3_deg 15.765 r_long_range_B_refined 8.943 r_long_range_B_other 8.892 r_scangle_other 7.003 r_dihedral_angle_1_deg 5.249 r_mcangle_it 5.026 r_mcangle_other 5.025 r_scbond_other 5.025 r_scbond_it 5.023 r_mcbond_it 3.708 r_mcbond_other 3.697 r_angle_refined_deg 1.573 r_angle_other_deg 1.458 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1890 Nucleic Acid Atoms Solvent Atoms 155 Heterogen Atoms 26
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing