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Dimeric 14-3-3 zeta in complex with unphosphorylated MAP2c peptide
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 2.34 47.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.31 α = 90 b = 69.108 β = 112.09 c = 82.619 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 2.08 48.78 99.3 0.102 0.111 0.042 0.998 11.7 7 46317
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 2.08 2.14 98.6 0.977 1.055 0.395 0.805 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 2.08 48.78 43853 2446 99.21 0.23618 0.23364 0.2401 0.28255 0.2831 RANDOM 37.105
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.107 r_long_range_B_refined 9.777 r_long_range_B_other 9.776 r_dihedral_angle_2_deg 9.41 r_scangle_other 7.437 r_dihedral_angle_1_deg 6.416 r_scbond_it 5.053 r_scbond_other 5.052 r_mcangle_it 4.656 r_mcangle_other 4.655
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.107 r_long_range_B_refined 9.777 r_long_range_B_other 9.776 r_dihedral_angle_2_deg 9.41 r_scangle_other 7.437 r_dihedral_angle_1_deg 6.416 r_scbond_it 5.053 r_scbond_other 5.052 r_mcangle_it 4.656 r_mcangle_other 4.655 r_mcbond_it 3.407 r_mcbond_other 3.406 r_angle_refined_deg 1.874 r_angle_other_deg 0.62 r_chiral_restr 0.089 r_bond_refined_d 0.008 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 3739 Nucleic Acid Atoms Solvent Atoms 245 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement Aimless data scaling MOLREP phasing XDS data reduction