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Human artd3 (parp3) - catalytic domain in complex with inhibitor STO1168
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 1.7M 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 40.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.269 α = 90 b = 56.804 β = 112.59 c = 56.626 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 0.99190 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 30 99.7 0.12 0.12 16.2 7.4 22044 22044
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 2.05 98.9 0.62 0.48 3.6 7.3 1622
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 28.4 20941 20941 1103 100 0.16393 0.16393 0.16154 0.1713 0.20953 0.215 RANDOM 19.122
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] 1.15 0.32 -0.89 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.149 r_dihedral_angle_4_deg 19.284 r_dihedral_angle_3_deg 13.606 r_dihedral_angle_1_deg 6.603 r_scangle_it 4.136 r_scbond_it 2.544 r_mcangle_it 1.678 r_angle_refined_deg 1.506 r_mcbond_it 0.93 r_angle_other_deg 0.917
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.149 r_dihedral_angle_4_deg 19.284 r_dihedral_angle_3_deg 13.606 r_dihedral_angle_1_deg 6.603 r_scangle_it 4.136 r_scbond_it 2.544 r_mcangle_it 1.678 r_angle_refined_deg 1.506 r_mcbond_it 0.93 r_angle_other_deg 0.917 r_mcbond_other 0.227 r_chiral_restr 0.093 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.002 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 2758 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms 28
Software Software Software Name Purpose GDA data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling