Clerocidin alkylates DNA through its epoxide function: Evidence for a fine tuned mechanism of action

Sara Richter, Barbara Gatto, Daniele Fabris, Ken Ichi Takao, Susumu Kobayashi, Manlio Palumbo

Research output: Contribution to journalArticlepeer-review

23 Citations (Scopus)


Clerocidin (CL) is an effective topoisomerase II-poison, which has been shown to produce DNA depurination and strand breaks per se at the guanine (G) level. To elucidate the roles played by the different functional groups of CL in the reactivity towards nucleic acids, we investigated CL derivatives with key structural modifications. The derivatives were reacted with plasmid, single-/double-stranded DNA and isolated 2′-deoxy-guanosines (dG). We show here that an intact oxirane ring is essential to achieve DNA modification and depurination. Through HPLC/MS and MS/MS techniques we were able to unambiguously characterize adducts obtained by reacting isolated dG and single-/double-stranded DNA with the drugs, indicating beyond reasonable doubt that the structure of a typical adduct is formed by epoxide alkylation at N7 of G with subsequent loss of the pentose unit. Further, we showed that reduction of vicinal carbonyl functions affect drug activity to a large extent. Our findings demonstrate that the characteristic DNA-alkylating properties of CL arise from mutual action of the functional groups present in this molecule. Its oxidation state seems crucial to modulate the rates of reactivity by finely tuning the strain applied on the oxirane ring.

Original languageEnglish
Pages (from-to)5149-5156
Number of pages8
JournalNucleic acids research
Issue number17
Publication statusPublished - 2003 Sept 1
Externally publishedYes

ASJC Scopus subject areas

  • Genetics


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