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Updated: May 9, 2026

Chemical Triphosphorylation of Oligonucleotides
Published on: June 2, 2022
Major mechanistic differences between the reactions of hydroxylamine with phosphate di- and tri-esters
Michelle Medeiros1, Eduardo H Wanderlind, José R Mora
1Instituto Nacional de Ciência e Tecnologia de Catálise, Departamento de Química, Universidade Federal de Santa Catarina, CEP 88040-900, Florianópolis, Santa Catarina, Brazil.
Abstract:
Hydroxylamine reacts as an oxygen nucleophile, most likely via its ammonia oxide tautomer, towards both phosphate di- and triesters of 2-hydroxypyridine. But the reactions are very different. The product of the two-step reaction with the triester TPP is trapped by the NH2OH present in solution to generate diimide, identified from its expected disproportionation and trapping products. The reaction with H3N(+)-O(-) shows general base catalysis, which calculations show is involved in the breakdown of the phosphorane addition-intermediate of a two-step reaction. The reactivity of the diester anion DPP(-) is controlled by its more basic pyridyl N. Hydroxylamine reacts preferentially with the substrate zwitterion DPP(±) to displace first one then a second 2-pyridone, in concerted S(N)2(P) reactions, forming O-phosphorylated products which are readily hydrolysed to inorganic phosphate. The suggested mechanisms are tested and supported by extensive theoretical calculations.
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