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Tankyrase 2 in complex with an inhibitor (OM-1700)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5NOB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295.15 7.5-25% PEG 6000, Bicine, pH = 9.0
Crystal Properties Matthews coefficient Solvent content 2.28 45.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.68 α = 90 b = 77.9 β = 90 c = 149.52 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 2018-04-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.96770 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.76 50 99.5 0.979 5.33 6.16164 13394
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.76 2.83 0.498
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 5NOB 2.76 37.458 13394 670 99.495 0.232 0.2296 0.2297 0.2809 0.2811 44.877
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] 0.391 2.608 -3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.7 r_dihedral_angle_4_deg 20.997 r_dihedral_angle_3_deg 17.208 r_dihedral_angle_1_deg 7.264 r_lrange_it 6.565 r_lrange_other 6.564 r_scangle_it 4.153 r_scangle_other 4.152 r_mcangle_it 4.099 r_mcangle_other 4.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.7 r_dihedral_angle_4_deg 20.997 r_dihedral_angle_3_deg 17.208 r_dihedral_angle_1_deg 7.264 r_lrange_it 6.565 r_lrange_other 6.564 r_scangle_it 4.153 r_scangle_other 4.152 r_mcangle_it 4.099 r_mcangle_other 4.099 r_scbond_it 2.527 r_scbond_other 2.527 r_mcbond_it 2.456 r_mcbond_other 2.456 r_chiral_restr_other 1.524 r_angle_refined_deg 1.388 r_angle_other_deg 1.207 r_nbd_other 0.219 r_nbd_refined 0.183 r_symmetry_nbd_other 0.179 r_nbtor_refined 0.163 r_symmetry_nbd_refined 0.136 r_xyhbond_nbd_refined 0.129 r_symmetry_xyhbond_nbd_refined 0.12 r_ncsr_local_group_1 0.105 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.054 r_symmetry_xyhbond_nbd_other 0.052 r_bond_refined_d 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3250 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing