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Tankyrase 2 in complex with an inhibitor (OM-153)
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 22.5% PEG6000, Bicine pH=8.75
Crystal Properties Matthews coefficient Solvent content 2.35 47.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.39 α = 90 b = 76.43 β = 90 c = 147.73 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 X 16M 2019-05-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97949 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 2.2 50 100 0.996 7.53 13.36 24609
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 2.2 2.26 0.841
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 2.2 41.43 24609 1231 99.963 0.214 0.2112 0.2166 0.2582 0.2582 38.595
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] 3.483 0.563 -4.047
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31 r_dihedral_angle_4_deg 14.978 r_dihedral_angle_3_deg 13.193 r_dihedral_angle_1_deg 6.708 r_lrange_it 4.336 r_lrange_other 4.317 r_mcangle_it 2.604 r_mcangle_other 2.603 r_scangle_it 2.579 r_scangle_other 2.578
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31 r_dihedral_angle_4_deg 14.978 r_dihedral_angle_3_deg 13.193 r_dihedral_angle_1_deg 6.708 r_lrange_it 4.336 r_lrange_other 4.317 r_mcangle_it 2.604 r_mcangle_other 2.603 r_scangle_it 2.579 r_scangle_other 2.578 r_mcbond_it 1.5 r_mcbond_other 1.5 r_scbond_it 1.499 r_scbond_other 1.498 r_angle_refined_deg 1.197 r_angle_other_deg 1.078 r_nbd_refined 0.162 r_symmetry_nbd_other 0.162 r_nbtor_refined 0.16 r_symmetry_nbd_refined 0.148 r_nbd_other 0.138 r_xyhbond_nbd_refined 0.129 r_symmetry_xyhbond_nbd_refined 0.121 r_symmetry_nbtor_other 0.068 r_chiral_restr 0.04 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3217 Nucleic Acid Atoms Solvent Atoms 124 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing