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PARP15 catalytic domain in complex with OUL499
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 18% (w/v) PEG 3350, 0.2 M ammonium chloride
Crystal Properties Matthews coefficient Solvent content 2.75 55.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.73 α = 90 b = 68.94 β = 90 c = 160.01 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 2024-01-27 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 2.6 50 98.4 0.297 0.325 0.966 5.68 6.2 16006
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 2.6 2.67 100 0.836 0.92 0.584 5.8
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-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.6 44.008 16006 801 98.438 0.233 0.2312 0.2743 0.2481 25.511
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] -1.884 1.953 -0.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.269 r_dihedral_angle_4_deg 21.411 r_dihedral_angle_3_deg 14.389 r_lrange_it 7.918 r_lrange_other 7.918 r_dihedral_angle_1_deg 7.127 r_mcangle_other 3.668 r_mcangle_it 3.666 r_scangle_it 3.58 r_scangle_other 3.579
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.269 r_dihedral_angle_4_deg 21.411 r_dihedral_angle_3_deg 14.389 r_lrange_it 7.918 r_lrange_other 7.918 r_dihedral_angle_1_deg 7.127 r_mcangle_other 3.668 r_mcangle_it 3.666 r_scangle_it 3.58 r_scangle_other 3.579 r_scbond_it 2.211 r_scbond_other 2.21 r_mcbond_it 2.174 r_mcbond_other 2.168 r_angle_refined_deg 1.539 r_angle_other_deg 1.307 r_ext_dist_refined_d 0.376 r_symmetry_xyhbond_nbd_refined 0.264 r_nbd_other 0.244 r_symmetry_nbd_refined 0.218 r_nbd_refined 0.2 r_nbtor_refined 0.174 r_symmetry_nbd_other 0.166 r_xyhbond_nbd_refined 0.13 r_symmetry_nbtor_other 0.074 r_chiral_restr 0.065 r_bond_refined_d 0.009 r_gen_planes_refined 0.007 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 47 Heterogen Atoms 29
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing