Binding affinity aminoglycosides

While the binding of aminoglycosides to the RRE provides a proof of principle, their affinity and, in particular, selectivity traits need to be improved for true therapeutic utility. To facilitate the discovery of potent and selective RRE binders, we developed a solid-phase assay. The components of this assembly include (a) insoluble agarose beads (or microtiter plates) covalently modified with streptavidin, (b) a biotinylated RRE fragment, and (c) a fluorescein-labeled Rev fragment (RevFl). Assembly of the three components generates an immobilized ternary complex whereby the biotinylated RRE binds to the beaded... 

TABLE 11.1. Association Constants of Various Nucleic Acids with Neomycin. From top to bottom, various polynucleotides with their conformational preference (B- to A-form) are listed in 10 mM sodium cacodylate, 100 mM NaCl, 0.1 mM EDTA, pH 6.8. RNA targets that have previously been shown to bind neomycin are also listed. These targets are examples of RNA secondary structures that show high-affinity binding to aminoglycosides. Solution conditions for RNA targets vary as shown... 

After administration of the recommended doses of amikacin for 10 days, renal damage probably occurs in less than 10% of cases. Limited data support the view that amikacin is less nephrotoxic than other aminoglycosides, possibly because of lower binding affinity to proximal tubular cells or reduced potential to cause phospholipidosis (SEDA-20,236). In several prospective randomized studies the liability of amikacin to cause nephrotoxicity was no greater than that of gentamicin or tobramycin (6-8). In a prospective study there was significantly lower nephrotoxicity with amikacin 15 mg/kg/day (4% toxicity) compared with netilmicin 7 mg/kg/day (12%) (9). As with other aminoglycosides, renal toxicity is reversible in most cases (10). 

Neamine analogues have been prepared in several studies in order to explore their potential as small molecule antitumour and anti-HIV agents, as well as bacterial enzyme inhibitors. 5-0-Alkylated neamines with polyamine functionality in the side-chain have been synthesized from 5-0-allylated precursors and these were found to exhibit high binding affinity for oncogene fusion proteins. The acylation of neamines at N-6 with aromatic units was carried out to explore the effect of these substituents on the interaction of neamine aminoglycosides with HIV RNA. Pyrene substituents were found to impart the most effective level... 

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