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VHH Z70 mutant 3 in interaction with PHF6 Tau peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7QCQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 1.5M ammonium sulfate, 4.5% isopropanol, 15% glycerol
Crystal Properties Matthews coefficient Solvent content 3.09 60.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.435 α = 90 b = 135.435 β = 90 c = 35.425 γ = 120
Symmetry Space Group P 65 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 16M 2023-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.9786 SOLEIL PROXIMA 2
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 2.35 44.33 100 0.203 0.208 0.045 0.999 18.8 38.7 8432
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 2.35 2.43 2.227 2.281 0.49 0.947 40.2
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.35 44.33 8418 398 99.964 0.203 0.2003 0.2632 0.252 42.058
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] 1.119 0.559 1.119 -3.629
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.377 r_dihedral_angle_3_deg 15.164 r_lrange_it 10.04 r_lrange_other 10.039 r_scangle_it 7.817 r_scangle_other 7.812 r_dihedral_angle_2_deg 7.302 r_dihedral_angle_1_deg 7.282 r_mcangle_it 6.451 r_mcangle_other 6.448
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.377 r_dihedral_angle_3_deg 15.164 r_lrange_it 10.04 r_lrange_other 10.039 r_scangle_it 7.817 r_scangle_other 7.812 r_dihedral_angle_2_deg 7.302 r_dihedral_angle_1_deg 7.282 r_mcangle_it 6.451 r_mcangle_other 6.448 r_scbond_it 5.25 r_scbond_other 5.245 r_mcbond_other 4.284 r_mcbond_it 4.279 r_angle_refined_deg 1.39 r_angle_other_deg 0.499 r_symmetry_nbd_refined 0.207 r_nbd_refined 0.199 r_symmetry_nbd_other 0.197 r_xyhbond_nbd_refined 0.195 r_nbtor_refined 0.19 r_nbd_other 0.169 r_symmetry_nbtor_other 0.087 r_chiral_restr 0.069 r_symmetry_xyhbond_nbd_refined 0.067 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 916 Nucleic Acid Atoms Solvent Atoms 30 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement REFMAC refinement Aimless data scaling XDS data reduction Coot model building MOLREP phasing