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Crystal structure of constitutively active PARP-1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GJW PDB entry 3GJW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 298 20-25% PEG 3350, 0.2 M Ammonium Sulfate, 0.1 M Bis-Tris, pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.82 56.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.405 α = 90 b = 93.405 β = 90 c = 134.197 γ = 120
Symmetry Space Group P 61 2 2
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 2014-08-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 12.3.1 1.12 ALS 12.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.6 20 99.7 11.8 13.8 11207
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.71 99.4 1.4 13.9
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 3GJW 2.6 19.58 10627 535 99.5 0.20232 0.19998 0.2096 0.25087 0.2585 RANDOM 59.488
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] -1.26 -1.26 -1.26 4.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.768 r_dihedral_angle_3_deg 15.7 r_dihedral_angle_4_deg 13.071 r_dihedral_angle_1_deg 6.72 r_long_range_B_refined 4.766 r_long_range_B_other 4.753 r_mcangle_it 2.057 r_mcangle_other 2.056 r_scangle_other 1.762 r_angle_refined_deg 1.228
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.768 r_dihedral_angle_3_deg 15.7 r_dihedral_angle_4_deg 13.071 r_dihedral_angle_1_deg 6.72 r_long_range_B_refined 4.766 r_long_range_B_other 4.753 r_mcangle_it 2.057 r_mcangle_other 2.056 r_scangle_other 1.762 r_angle_refined_deg 1.228 r_mcbond_it 1.15 r_mcbond_other 1.15 r_scbond_it 1.006 r_scbond_other 0.996 r_angle_other_deg 0.706 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.001 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 1887 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling Coot model building