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Structure of 14-3-3 sigma delta C with electrophilic peptide 4IEA-5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.095 M HEPES pH 7.7, 24% (v/v) PEG400
0.19 M CaCl2, 5% (v/v) Glycerol
Crystal Properties Matthews coefficient Solvent content 2.68 54.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.513 α = 90 b = 111.724 β = 90 c = 63.077 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 PILATUS 6M 2022-06-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.03322 PETRA III, DESY P11
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 2.2 55.92 99.7 0.991 12.1 12.8 15133
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 2.2 2.27 0.895
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 2.2 55.92 14393 727 99.57 0.17757 0.1754 0.1855 0.22067 0.2255 RANDOM 17.205
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] -0.69 -0.02 0.72
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.894 r_dihedral_angle_2_deg 7.642 r_long_range_B_refined 6.833 r_long_range_B_other 6.716 r_scangle_other 5.323 r_dihedral_angle_1_deg 5.164 r_mcangle_it 3.311 r_mcangle_other 3.311 r_scbond_it 3.236 r_scbond_other 3.234
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.894 r_dihedral_angle_2_deg 7.642 r_long_range_B_refined 6.833 r_long_range_B_other 6.716 r_scangle_other 5.323 r_dihedral_angle_1_deg 5.164 r_mcangle_it 3.311 r_mcangle_other 3.311 r_scbond_it 3.236 r_scbond_other 3.234 r_mcbond_it 2.075 r_mcbond_other 2.075 r_angle_refined_deg 1.515 r_angle_other_deg 0.489 r_chiral_restr 0.072 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 1846 Nucleic Acid Atoms Solvent Atoms 110 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling MOLREP phasing Coot model building