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Issue 23, 2008
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Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2+-dependent deoxyribozymes that use 2′,3′-cyclic phosphate RNA substrates

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Abstract

Our previous efforts have used in vitro selection to identify numerous Zn2+-dependent deoxyribozymes that ligate two RNA substrates with reaction at a 2′,3′-cyclic phosphate. Each deoxyribozyme creates one of several different RNA linkages, including native 3′–5′ and non-native 2′–5′ phosphodiester bonds as well as many unnatural linkages. In this report, we describe experiments to reveal design aspects of the selection strategy that favor site-selective and regioselective synthesis of native 3′–5′ RNA linkages. The results also reveal that an explicit selection pressure for RNA substrate sequence generality must be developed if the deoxyribozymes are to have practical generality.

Graphical abstract: Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2+-dependent deoxyribozymes that use 2′,3′-cyclic phosphate RNA substrates

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Publication details

The article was received on 05 Aug 2008, accepted on 01 Sep 2008 and first published on 27 Oct 2008


Article type: Paper
DOI: 10.1039/B813566E
Citation: Org. Biomol. Chem., 2008,6, 4391-4398
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    Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2+-dependent deoxyribozymes that use 2′,3′-cyclic phosphate RNA substrates

    D. M. Kost, J. P. Gerdt, P. I. Pradeepkumar and S. K. Silverman, Org. Biomol. Chem., 2008, 6, 4391
    DOI: 10.1039/B813566E

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