Mechanically manipulating the DNA threading intercalation rate

Thayaparan Paramanathan, Fredrik Westerlund, Micah J. McCauley, Ioulia Rouzina, Per Lincoln, Mark C. Williams

Research output: Contribution to journalArticlepeer-review

34 Scopus citations


The dumbbell shaped binuclear ruthenium complex ΔΔ-P requires transiently melted DNA in order to thread through the DNA bases and intercalate DNA. Because such fluctuations are rare at room temperature, the binding rates are extremely low in bulk experiments. Here, single DNA molecule stretching is used to lower the barrier to DNA melting, resulting in direct mechanical manipulation of the barrier to DNA binding by the ligand. The rate of DNA threading depends exponentially on force, consistent with theoretical predictions. From the observed force dependence of the binding rate, we demonstrate that only one base pair must be transiently melted for DNA threading to occur.

Original languageEnglish (US)
Pages (from-to)3752-3753
Number of pages2
JournalJournal of the American Chemical Society
Issue number12
StatePublished - Mar 26 2008


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