The role of nucleobase carboradical and carbanion on DNA lesions: a theoretical study.
DNA base release induced by H and OH radical addition to thymine and their corresponding electron adducts is studied at the DFT B3LYP/6-31+G(d,p) level in gas phase and in solution. H atom transfer after radical formation from C2' on the sugar to the C6 site on the base is shown to be prohibited for the radical species. Their corresponding electron adducts, albeit minor events in cellular systems, show excellent capabilities to proton transfer from C2' on the sugar to the C6 site on the base. The barriers for subsequent N-glycosidic bond dissociation range from 0.1 to 1.6 kcal mol(-1) at the B3LYP level and around 5 kcal mol(-1) using the BB1K functional, implying that these reactions can serve as a source to abasic sites. Analysis of bond dissociation energies show that all the reactions are exothermic, which is consistent with the changes in N-glycosidic bond lengths during the proton-transfer reactions. Bulk solvation plays a reverse influence on proton transfer and the bond rupture reactions. Molecular orbitals, NPA charges, and electron affinities are calculated to shed further light on the properties leading up to the intramolecular reactions.
Zhang
Ru Bo
RB
Department of Natural Sciences and Orebro Life Science Center, Orebro University, 70182 Orebro, Sweden.
Eriksson
Leif A
LA
D020029:Base Pairing; D002244:Carbon / Q000737:chemistry; D004247:DNA / Q000737:chemistry*; D004583:Electrons; D005609:Free Radicals / Q000737:chemistry*; D006027:Glycosides / Q000737:chemistry; D006859:Hydrogen / Q000737:chemistry; D007477:Ions / Q000737:chemistry*; D018499:Linear Energy Transfer; D008962:Models, Theoretical; D009690:Nucleic Acid Conformation; D009705:Nucleosides / Q000737:chemistry*; D009711:Nucleotides / Q000737:chemistry; D011522:Protons; D012997:Solvents / Q000737:chemistry; D013816:Thermodynamics; D013941:Thymine / Q000737:chemistry
D005609:Free Radicals; D006027:Glycosides; D007477:Ions; D009705:Nucleosides; D009711:Nucleotides; D011522:Protons; D012997:Solvents; D002244:Carbon; D006859:Hydrogen; D004247:DNA; D013941:Thymine