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PARP15 catalytic domain in complex with OUL310
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 2.63 53.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.21 α = 90 b = 68.08 β = 90 c = 156.76 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 2022-02-11 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 1.8 50 98.7 0.104 0.114 0.996 10.15 5.6 45181
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 1.8 1.85 97 0.742 0.826 0.812 5
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 1.8 43.477 45181 2259 98.674 0.182 0.1805 0.1805 0.2119 0.2121 25.925
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] -1.691 -0.702 2.393
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.677 r_dihedral_angle_4_deg 22.379 r_dihedral_angle_3_deg 14.095 r_dihedral_angle_1_deg 7.25 r_lrange_it 6.699 r_lrange_other 6.671 r_scangle_it 4.915 r_scangle_other 4.914 r_mcangle_other 3.814 r_mcangle_it 3.813
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.677 r_dihedral_angle_4_deg 22.379 r_dihedral_angle_3_deg 14.095 r_dihedral_angle_1_deg 7.25 r_lrange_it 6.699 r_lrange_other 6.671 r_scangle_it 4.915 r_scangle_other 4.914 r_mcangle_other 3.814 r_mcangle_it 3.813 r_scbond_it 3.224 r_scbond_other 3.223 r_mcbond_it 2.521 r_mcbond_other 2.514 r_angle_refined_deg 1.617 r_angle_other_deg 1.394 r_symmetry_nbd_refined 0.217 r_nbd_refined 0.211 r_symmetry_nbd_other 0.18 r_nbtor_refined 0.179 r_nbd_other 0.17 r_xyhbond_nbd_refined 0.154 r_symmetry_nbtor_other 0.081 r_chiral_restr 0.079 r_symmetry_xyhbond_nbd_refined 0.073 r_bond_refined_d 0.011 r_symmetry_xyhbond_nbd_other 0.011 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3190 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing