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Issue 33, 2012
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Intracomplex general acid/base catalyzed cleavage of RNA phosphodiester bonds: the leaving group effect

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Abstract

The general acid/base catalyzed cleavage of a number of alkyl esters of uridine-3′- (and -5′-)phosphate has been studied by utilizing a cleaving agent, in which the catalytic moiety (a substituted 1,3,5-triazine) is tethered to an anchoring ZnII:cyclen moiety. Around pH 7, formation of a strong ternary complex between uracil, ZnII and cyclen brings the general acid/base catalyst close to the scissile phosphodiester linkage, resulting in rate acceleration of 1–2 orders of magnitude with the uridine-3′-phosphodiesters. Curiously, no acceleration was observed with their 5′-counterparts. A βlg value of −0.7 has been determined for the general acid/base catalyzed cleavage, consistent with a proton transfer to the leaving group in the rate-limiting step.

Graphical abstract: Intracomplex general acid/base catalyzed cleavage of RNA phosphodiester bonds: the leaving group effect

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Publication details

The article was received on 18 May 2012, accepted on 11 Jul 2012 and first published on 13 Jul 2012


Article type: Paper
DOI: 10.1039/C2OB25958C
Citation: Org. Biomol. Chem., 2012,10, 6785-6791
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    Intracomplex general acid/base catalyzed cleavage of RNA phosphodiester bonds: the leaving group effect

    T. Lönnberg and M. Luomala, Org. Biomol. Chem., 2012, 10, 6785
    DOI: 10.1039/C2OB25958C

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