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Tankyrase 2 in complex with an inhibitor (OM-1704)
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% PEG6000, Bicine pH=9.0
Crystal Properties Matthews coefficient Solvent content 2.53 51.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.99 α = 90 b = 76.76 β = 90 c = 148.12 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 EIGER2 XE 16M 2018-07-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.979500 Diamond I04
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 2.75 50 98.7 0.99 5.66 6.397 12895
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 2.75 2.82 0.685
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 2.75 41.56 12894 645 98.669 0.224 0.2208 0.2208 0.2743 0.2736 50.105
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] 1.184 4.478 -5.662
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.748 r_dihedral_angle_3_deg 16.482 r_dihedral_angle_4_deg 14.736 r_lrange_it 8.249 r_lrange_other 8.244 r_dihedral_angle_1_deg 7.758 r_mcangle_it 5.401 r_mcangle_other 5.4 r_scangle_it 5.207 r_scangle_other 5.206
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.748 r_dihedral_angle_3_deg 16.482 r_dihedral_angle_4_deg 14.736 r_lrange_it 8.249 r_lrange_other 8.244 r_dihedral_angle_1_deg 7.758 r_mcangle_it 5.401 r_mcangle_other 5.4 r_scangle_it 5.207 r_scangle_other 5.206 r_mcbond_it 3.256 r_mcbond_other 3.255 r_scbond_it 3.117 r_scbond_other 3.116 r_chiral_restr_other 1.509 r_angle_refined_deg 1.396 r_angle_other_deg 1.218 r_nbd_other 0.274 r_symmetry_xyhbond_nbd_refined 0.224 r_symmetry_nbd_refined 0.22 r_nbd_refined 0.196 r_symmetry_nbd_other 0.182 r_nbtor_refined 0.168 r_xyhbond_nbd_refined 0.154 r_ncsr_local_group_1 0.106 r_symmetry_xyhbond_nbd_other 0.1 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.054 r_bond_refined_d 0.006 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3284 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing