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Molecular architecture of mammalian polynucleotide kinase, a DNA repair enzyme
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.3 293 0.1M Tris (pH 8.3 - 8.7), 18-20% PEG 5000 MME, 0.1M Li2SO4, 5mM DTT, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.8 31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.473 α = 90 b = 169.872 β = 90 c = 77.016 γ = 90
Symmetry Space Group P 21 21 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 315 2003-09-20 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.0199, 0.9793, 0.9797 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.8 30 99 0.095 13.1 31529 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.8 2.9 91.2 0.448 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 2.8 29.75 31529 29868 1562 99.54 0.22029 0.21856 0.2179 0.2525 0.2522 RANDOM 26.374
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] -2.19 5.27 -3.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.012 r_dihedral_angle_3_deg 16.24 r_dihedral_angle_4_deg 15.69 r_dihedral_angle_1_deg 4.818 r_angle_refined_deg 0.923 r_scangle_it 0.772 r_scbond_it 0.478 r_mcangle_it 0.361 r_nbtor_refined 0.305 r_mcbond_it 0.201
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.012 r_dihedral_angle_3_deg 16.24 r_dihedral_angle_4_deg 15.69 r_dihedral_angle_1_deg 4.818 r_angle_refined_deg 0.923 r_scangle_it 0.772 r_scbond_it 0.478 r_mcangle_it 0.361 r_nbtor_refined 0.305 r_mcbond_it 0.201 r_xyhbond_nbd_refined 0.146 r_nbd_refined 0.143 r_symmetry_hbond_refined 0.095 r_symmetry_vdw_refined 0.089 r_chiral_restr 0.059 r_bond_refined_d 0.005 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6706 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing