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PARP15 catalytic domain in complex with OUL250
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3BLJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 20% (w/v) PEG 3350, 0.2 M ammonium chloride
Crystal Properties Matthews coefficient Solvent content 2.74 55.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.4 α = 90 b = 68.88 β = 90 c = 160.89 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 2021-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.965459 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 1.9 50 99 0.093 0.106 0.996 9.41 4.1 40283
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 1.9 1.95 99.5 0.628 0.719 0.684 4.33
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 1.9 43.732 40283 2015 98.958 0.184 0.1817 0.1817 0.2204 0.2202 29.314
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] -1.953 -0.857 2.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.797 r_dihedral_angle_4_deg 20.683 r_dihedral_angle_3_deg 14.38 r_lrange_it 7.776 r_lrange_other 7.745 r_dihedral_angle_1_deg 6.995 r_scangle_it 5.425 r_scangle_other 5.423 r_mcangle_it 4.285 r_mcangle_other 4.285
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.797 r_dihedral_angle_4_deg 20.683 r_dihedral_angle_3_deg 14.38 r_lrange_it 7.776 r_lrange_other 7.745 r_dihedral_angle_1_deg 6.995 r_scangle_it 5.425 r_scangle_other 5.423 r_mcangle_it 4.285 r_mcangle_other 4.285 r_scbond_it 3.558 r_scbond_other 3.557 r_mcbond_it 2.8 r_mcbond_other 2.797 r_angle_refined_deg 1.609 r_angle_other_deg 1.348 r_dihedral_angle_other_2_deg 0.809 r_nbd_refined 0.209 r_symmetry_nbd_refined 0.209 r_symmetry_nbd_other 0.177 r_nbtor_refined 0.177 r_xyhbond_nbd_refined 0.161 r_symmetry_xyhbond_nbd_refined 0.142 r_nbd_other 0.135 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.075 r_symmetry_xyhbond_nbd_other 0.035 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3195 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing