☰ Navigation Tabs
Human tankyrase 2 - catalytic Parp domain in complex with an inhibitor UPF1854
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KR8 PDB ENTRY 3KR8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 277 19% PEG3350, 0.2M AmS, 0.1M Tris, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.41 48.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.741 α = 90 b = 96.734 β = 90 c = 118.606 γ = 90
Symmetry Space Group C 2 2 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 CCD ADSC QUANTUM 315r 2013-02-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.979500 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.95 30 95.3 0.084 15.1 5.1 36970 36970
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 1.95 2 98.1 0.739 3.5 5 2787
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 (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 3KR8 1.95 29.02 35094 35094 1847 95.29 0.17758 0.17502 0.1818 0.22575 0.2236 RANDOM 33.696
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] -0.42 -0.75 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.24 r_dihedral_angle_4_deg 20.011 r_dihedral_angle_3_deg 15.579 r_long_range_B_refined 8.638 r_long_range_B_other 8.573 r_dihedral_angle_1_deg 6.458 r_scangle_other 6.159 r_mcangle_it 4.832 r_mcangle_other 4.831 r_scbond_it 4.051
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.24 r_dihedral_angle_4_deg 20.011 r_dihedral_angle_3_deg 15.579 r_long_range_B_refined 8.638 r_long_range_B_other 8.573 r_dihedral_angle_1_deg 6.458 r_scangle_other 6.159 r_mcangle_it 4.832 r_mcangle_other 4.831 r_scbond_it 4.051 r_scbond_other 4.042 r_mcbond_it 3.388 r_mcbond_other 3.375 r_angle_refined_deg 1.97 r_angle_other_deg 0.943 r_chiral_restr 0.121 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3312 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms 62
Software Software Software Name Purpose GDA data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling