Structure of a site specific major groove (2S,3S)-N6-(2,3,4- trihydroxybutyl)-2′-deoxyadenosyl DNA adduct of butadiene diol epoxide

Tandace A. Scholdberg, Lubomir V. Nechev, W. Keither Merritt, Thomas M. Harris, Constance M. Harris, R. Stephen Lloyd, Michael P. Stone

Research output: Contribution to journalArticlepeer-review

15 Scopus citations


The solution structure of the (2S,3S)-N6-(2,3,4-trihydroxybutyl) -2′-deoxyadenosyl adduct arising from the alkylation of adenine N 6 at position X6 in d(CGGACXAGAAG)·d(CTTCTTGTCCG), by butadiene diol epoxide, was determined. This oligodeoxynucleotide contains codon 61 (underlined) of the human N-ras protooncogene. This oligodeoxynucleotide, containing the adenine N6 adduct butadiene triol (BDT) adduct at the second position of codon 61, was named the ras61 S,S-BDT-(61,2) adduct. NMR spectroscopy revealed modest structural perturbations localized to the site of adduction at X6·T17, and its nearest-neighbor base pairs C5·G18 and A 7·T16. All sequential NOE connectivities arising from DNA protons were observed. Torsion angle analysis from COSY data suggested that the deoxyribose sugar at X6 remained in the C2′-endo conformation. Molecular dynamics calculations using a simulated annealing protocol restrained by a total of 442 NOE-derived distances and J coupling-derived torsion angles refined structures in which the BDT moiety oriented in the major groove. Relaxation matrix analysis suggested hydrogen bonding between the hydroxyl group located at the β-carbon of the BDT moiety and the T17 O4 of the modified base pair X 6·T17. The minimal perturbation of DNA induced by this major groove adduct correlated with its facile bypass by three Escherichia coli DNA polymerases in vitro and its weak mutagenicity [Carmical, J. R., Nechev, L. V., Harris, C. M., Harris, T. M., and Lloyd, R. S. (2000) Environ. Mol. Mutagen. 35, 48-56]. Overall, the structure of this adduct is consistent with an emerging pattern in which major groove adenine N6 alkylation products of styrene and butadiene oxides that do not strongly perturb DNA structure are not strongly mutagenic.

Original languageEnglish (US)
Pages (from-to)717-730
Number of pages14
JournalChemical Research in Toxicology
Issue number6
StatePublished - Jun 2004

ASJC Scopus subject areas

  • Toxicology


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