☰ Navigation Tabs
Catalytic domain of human tankyrase 2 in complex with a dual-site inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB PDB_00007OJO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 22% (w/v) PEG 3350, 0.2 M lithium sulfate, 0.1 M Tris, 1% (v/v) DMSO, 1 mM inhibitor
Crystal Properties Matthews coefficient Solvent content 2.4 48.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.68 α = 90 b = 76.5 β = 90 c = 149.02 γ = 90
Symmetry Space Group P 21 21 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 PILATUS3 6M 2023-09-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.96546 ESRF MASSIF-1
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 2.35 41.66 99.8 0.205 0.211 0.997 10.53 17.7 20593 43.7
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 2.35 2.41 99.8 1.098 1.145 0.837 1.86 12.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.35 41.66 20593 2055 99.796 0.214 0.2115 0.2179 0.2353 0.2377 Random selection 46.594
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] 2.903 0.239 -3.142
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.865 r_dihedral_angle_3_deg 12.811 r_lrange_other 9.003 r_lrange_it 9 r_dihedral_angle_2_deg 7.797 r_dihedral_angle_1_deg 6.556 r_scangle_it 5.784 r_scangle_other 5.783 r_mcangle_it 5.118 r_mcangle_other 5.117
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 12.865 r_dihedral_angle_3_deg 12.811 r_lrange_other 9.003 r_lrange_it 9 r_dihedral_angle_2_deg 7.797 r_dihedral_angle_1_deg 6.556 r_scangle_it 5.784 r_scangle_other 5.783 r_mcangle_it 5.118 r_mcangle_other 5.117 r_scbond_it 3.49 r_scbond_other 3.489 r_mcbond_it 3.111 r_mcbond_other 3.11 r_angle_refined_deg 1.349 r_angle_other_deg 0.592 r_nbd_refined 0.203 r_symmetry_nbd_other 0.187 r_nbtor_refined 0.183 r_symmetry_xyhbond_nbd_refined 0.165 r_nbd_other 0.163 r_chiral_restr_other 0.152 r_symmetry_nbd_refined 0.128 r_xyhbond_nbd_refined 0.124 r_ncsr_local_group_2 0.108 r_symmetry_nbtor_other 0.079 r_ncsr_local_group_1 0.076 r_chiral_restr 0.059 r_ncsr_local_group_3 0.018 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3236 Nucleic Acid Atoms Solvent Atoms 83 Heterogen Atoms 99
Software Software Software Name Purpose MxCuBE data collection XDS data reduction XSCALE data scaling Coot model building PHASER phasing REFMAC refinement