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Tankyrase 2 in complex with a quinazolin-4-one inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 70M1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277.15 100 mM Tris pH 8.5, 22% PEG3350, 200 mM Li2SO4, 250 mM NaCl, 20% glycerol
Crystal Properties Matthews coefficient Solvent content 2.67 53.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.419 α = 90 b = 98.162 β = 90 c = 119.579 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 EIGER X 16M 2023-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.920013 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.8 50 100 0.079 0.082 0.999 17.75 13.54 49407
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.91 99.9 0.991 1.029 0.876 2.11 13.88
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.801 42.324 49406 2471 99.953 0.183 0.1808 0.1832 0.2147 0.2176 36.444
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] -0.394 -1.605 1.999
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.95 r_dihedral_angle_4_deg 16.784 r_dihedral_angle_3_deg 13.042 r_lrange_it 6.984 r_lrange_other 6.98 r_dihedral_angle_1_deg 6.692 r_scangle_it 5.235 r_scangle_other 5.209 r_mcangle_it 3.772 r_mcangle_other 3.771
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.95 r_dihedral_angle_4_deg 16.784 r_dihedral_angle_3_deg 13.042 r_lrange_it 6.984 r_lrange_other 6.98 r_dihedral_angle_1_deg 6.692 r_scangle_it 5.235 r_scangle_other 5.209 r_mcangle_it 3.772 r_mcangle_other 3.771 r_scbond_it 3.377 r_scbond_other 3.354 r_mcbond_it 2.639 r_mcbond_other 2.637 r_angle_refined_deg 1.402 r_angle_other_deg 1.301 r_nbd_refined 0.193 r_nbd_other 0.179 r_symmetry_nbd_other 0.174 r_symmetry_nbd_refined 0.171 r_symmetry_xyhbond_nbd_refined 0.169 r_nbtor_refined 0.164 r_xyhbond_nbd_refined 0.125 r_symmetry_nbtor_other 0.071 r_chiral_restr 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 3341 Nucleic Acid Atoms Solvent Atoms 174 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing