C2sc01067d 1707..1714

We report that micromolar concentrations of lanthanide ions can be required cofactors for DNAhydrolyzing deoxyribozymes. Previous work identified deoxyribozymes that simultaneously require both Zn and Mn to achieve DNA-catalyzed DNA hydrolysis (10 rate enhancement); a mutant of one such DNA catalyst requires only Zn. Here we show that in vitro selection in the presence of 10 mM lanthanide ion (Ce, Eu, or Yb) along with 1 mM Zn leads to numerous DNA-hydrolyzing deoxyribozymes that strictly require the lanthanide ion as well as Zn for catalytic activity. These DNA catalysts have a range of lanthanide dependences, including some deoxyribozymes that strongly favor one particular lanthanide ion (e.g., Ce [ Eu [ Yb) and others that function well with more than one lanthanide ion. Intriguingly, two of the Yb-dependent deoxyribozymes function well with Yb alone (Kd,app 10 mM, in the absence of Zn) and have little or no activity with Eu or Ce. In contrast to these selection outcomes when lanthanide ions were present, new selections with Zn or Mn alone, or Zn with Mg/Ca, led primarily to deoxyribozymes that cleave DNA by deglycosylation and b-elimination rather than by hydrolysis, including several instances of depyrimidination. We conclude that lanthanide ions warrant closer attention as cofactors when identifying new nucleic acid catalysts, especially for applications in which high concentrations of polyvalent metal ion cofactors are undesirable.