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Human artd3 (parp3) - catalytic domain in complex with inhibitor ME0368
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GV4 PDB ENTRY 4GV4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 1.95M DL-Malic Acid, 0.1M Bis-tris-propane , pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.06 40.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.169 α = 90 b = 56.77 β = 112.53 c = 56.637 γ = 90
Symmetry Space Group P 1 21 1
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 PILATUS 6M 2011-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97950 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 2.1 30 96.9 0.132 0.142 13.9 7 18469 18469
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.15 78.3 0.608 0.625 2.7 4.7 1088
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4GV4 2.1 28.39 17545 17545 924 100 0.17421 0.17421 0.17159 0.1766 0.22288 0.2305 RANDOM 19.637
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] 1.52 0.32 -0.87 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.146 r_dihedral_angle_4_deg 20.793 r_dihedral_angle_3_deg 13.713 r_dihedral_angle_1_deg 6.582 r_scangle_it 4.2 r_scbond_it 2.616 r_mcangle_it 1.732 r_angle_refined_deg 1.638 r_angle_other_deg 0.984 r_mcbond_it 0.954
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.146 r_dihedral_angle_4_deg 20.793 r_dihedral_angle_3_deg 13.713 r_dihedral_angle_1_deg 6.582 r_scangle_it 4.2 r_scbond_it 2.616 r_mcangle_it 1.732 r_angle_refined_deg 1.638 r_angle_other_deg 0.984 r_mcbond_it 0.954 r_mcbond_other 0.226 r_chiral_restr 0.095 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2749 Nucleic Acid Atoms Solvent Atoms 127 Heterogen Atoms 34
Software Software Software Name Purpose GDA data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling