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Iminodipropionic Acid as the Leaving Group for DNA Polymerization by HIV‐1 Reverse Transcriptase
Author(s) -
Song XiaoPing,
Bouillon Camille,
Lescrinier Eveline,
Herdewijn Piet
Publication year - 2011
Publication title -
chembiochem
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.05
H-Index - 126
eISSN - 1439-7633
pISSN - 1439-4227
DOI - 10.1002/cbic.201100160
Subject(s) - phosphoramidate , leaving group , nucleotide , chemistry , stereochemistry , moiety , dna , reverse transcriptase , enzyme kinetics , boronic acid , amino acid , polymerase , biochemistry , rna , combinatorial chemistry , active site , enzyme , catalysis , gene
Previous studies have demonstrated that some selected amino monoacids and amino diacids can function as leaving groups in the polymerase‐catalyzed incorporation of deoxynucleotides into DNA. Among these, the iminodiacetic acid phosphoramidate of deoxyadenosine monophosphate (IDA‐dAMP) represents an interesting example, as it could overcome some of the problems observed when using L ‐aspartic acid as the leaving group, that is, poor chain elongation. We have now synthesized and evaluated a series of IDA‐dAMP analogues that bear either an extended aliphatic chain in the amino acid function, or a phosphonic acid moiety (substituting for the carboxylic acid function). Among these compounds, the nucleotide with an iminodipropionic acid leaving group (IDP‐dAMP) was identified as the best substrate; the excellent single incorporation (91 % conversion to a P+1 strand at 50 μ M ) was at a substrate concentration ten times lower than that used for IDA‐dAMP). This nucleotide also presented improved kinetics and elongation capability compared to IDA‐dAMP. The analogues with T, G, and C base moieties were also investigated for their incorporation ability with HIV‐1 RT. The incorporation efficiency was found to decrease in the order A>T>G>C. The properties of the iminodipropionic acid as the leaving group surpass those of previously evaluated leaving groups; this acid will be a prime candidate for in vivo testing.