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HUMAN ARTD2 (PARP2) - CATALYTIC DOMAIN IN COMPLEX WITH OLAPARIB
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KCZ PDB ENTRY 3KCZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 277 25% PEG3350, 0.1M Tris
Crystal Properties Matthews coefficient Solvent content 2.4 48.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.083 α = 90 b = 134.123 β = 117.96 c = 58.348 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 CCD ADSC QUANTUM 315 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 2.1 30 99.5 0.109 0.107 14.6 7.5 45851 45851
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.15 98.4 0.669 3.1 7.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3KCZ 2.1 29.28 43558 2293 100 0.18984 0.18763 0.23103 0.2198 RANDOM 27.879
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] 0.97 0.54 0.37 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.227 r_dihedral_angle_4_deg 16.891 r_dihedral_angle_3_deg 14.919 r_dihedral_angle_1_deg 6.212 r_scangle_it 3.724 r_scbond_it 2.319 r_angle_refined_deg 1.53 r_mcangle_it 1.471 r_angle_other_deg 1.027 r_mcbond_it 0.805
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.227 r_dihedral_angle_4_deg 16.891 r_dihedral_angle_3_deg 14.919 r_dihedral_angle_1_deg 6.212 r_scangle_it 3.724 r_scbond_it 2.319 r_angle_refined_deg 1.53 r_mcangle_it 1.471 r_angle_other_deg 1.027 r_mcbond_it 0.805 r_mcbond_other 0.19 r_chiral_restr 0.088 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.004 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5609 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 82
Software Software Software Name Purpose REFMAC refinement XDS data reduction PHASER phasing XSCALE data scaling