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Dimeric 14-3-3 zeta in complex with MAP2c peptide containing pS435
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5NAS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293.15 100 mM HEPES pH(7.5), 400 mM Sodium acetate, 8mM Cadmium sulfate
Crystal Properties Matthews coefficient Solvent content 2.35 47.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.394 α = 90 b = 69.137 β = 112 c = 82.797 γ = 90
Symmetry Space Group P 1 21 1
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 EIGER2 X CdTe 16M Toroidal mirror 2020-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9762 PETRA III, EMBL c/o DESY P14 (MX2)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 2.45 48.83 99.1 0.128 0.137 0.049 0.999 11.8 7.8 28553
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.45 2.55 97.9 1.264 1.354 0.479 0.69 7.7
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 2.45 48.83 27122 1413 99.03 0.21352 0.20999 0.2158 0.27521 0.2733 RANDOM 50.039
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] -0.07 0.08 0.12 -0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.831 r_long_range_B_refined 13.301 r_long_range_B_other 13.3 r_dihedral_angle_2_deg 11.78 r_scangle_other 10.153 r_dihedral_angle_1_deg 7.038 r_scbond_it 6.978 r_scbond_other 6.976 r_mcangle_it 6.646 r_mcangle_other 6.646
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.831 r_long_range_B_refined 13.301 r_long_range_B_other 13.3 r_dihedral_angle_2_deg 11.78 r_scangle_other 10.153 r_dihedral_angle_1_deg 7.038 r_scbond_it 6.978 r_scbond_other 6.976 r_mcangle_it 6.646 r_mcangle_other 6.646 r_mcbond_it 4.66 r_mcbond_other 4.647 r_angle_refined_deg 1.919 r_angle_other_deg 0.641 r_chiral_restr 0.087 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 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 3698 Nucleic Acid Atoms Solvent Atoms 200 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing XDS data reduction