SNAP output for PDB entry 5hlf [SNAP web server]

PDB-id

5hlf; SNAP-derived features in text and JSON formats; DNAproDB

Class

transferase-inhibitor-DNA

Method

X-ray (2.95 Å)

Summary

Structure of hiv-1 reverse transcriptase in complex with a 38-mer hairpin template-primer DNA aptamer and an alpha-carboxyphosphonate inhibitor

Reference

Mullins ND, Maguire NM, Ford A, Das K, Arnold E, Balzarini J, Maguire AR (2016): "Exploring the role of the alpha-carboxyphosphonate moiety in the HIV-RT activity of alpha-carboxy nucleoside phosphonates." Org.Biomol.Chem., 14, 2454-2465. doi: 10.1039/c5ob02507a.

Abstract

As α-carboxy nucleoside phosphonates (α-CNPs) have demonstrated a novel mode of action of HIV-1 reverse transcriptase inhibition, structurally related derivatives were synthesized, namely the malonate , the unsaturated and saturated bisphosphonates and , respectively and the amide . These compounds were evaluated for inhibition of HIV-1 reverse transcriptase in cell-free assays. The importance of the α-carboxy phosphonoacetic acid moiety for achieving reverse transcriptase inhibition, without the need for prior phosphorylation, was confirmed. The malonate derivative was less active by two orders of magnitude than the original α-CNPs, while displaying the same pattern of kinetic behavior; interestingly the activity resides in the "L"-enantiomer of , as seen with the earlier series of α-CNPs. A crystal structure with an RT/DNA complex at 2.95 Å resolution revealed the binding of the "L"-enantiomer of , at the polymerase active site with a weaker metal ion chelation environment compared to (T-α-CNP) which may explain the lower inhibitory activity of .