Specific binding of aminoglycoside antibiotics to RNA

Wang, Yong; Rando, Robert R.

doi:10.1016/1074-5521(95)90047-0

Cited by 218 publications

(216 citation statements)

References 18 publications

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“…Wang & Rando, 1995) Tobramycin 2'-OMe-RNA Electrochemical (Impedence) 0.7 µM (González-Fernández et al, 2011) RNA 180 -- (Kwon et al, 2001) Kanamycin RNA 10-30 -- (Goertz, Colin Cox Ellington, 2004b) RNA Low nM -- (Goertz, Colin Cox Ellington, 2004b) RNA 1800 -- (Cowan et al, 2000) Electrochemical (Impedence) "sub µM" (de-los-Santos-Alvarez et al, 2007) Neomycin 2'-OMe-RNA Surface Plasmon Resonance (SPR) 10 nM (de-los-Santos-Álvarez et al, 2009) - (Cruz-Aguado & Penner, 2008a) Fluorescence Polarization 5 nM (Cruz-Aguado & Penner, 2008b) Electrochemical 30 pg/mL (Kuang et al, 2010) Electrochemiluminescent 0.007 ng/mL (Z. Wang et al, 2010) Mycotoxins Ochratoxin A DNA 200…”

Section: Aminoglycosidesmentioning

confidence: 99%

Advances in Aptamer-Based Biosensors for Food Safety

McKeague¹,

Giamberardino²,

DeRosa³

2011

Environmental Biosensors

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Section: Aminoglycosidesmentioning

confidence: 99%

Advances in Aptamer-Based Biosensors for Food Safety

McKeague¹,

Giamberardino²,

DeRosa³

2011

Environmental Biosensors

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“…Our structural understanding of speci®c aminoglycoside binding to RNA has recently progressed following publication of two NMR structures of aminoglycoside/RNA complexes (Jiang et al, 1996;Fourmy et al, 1996) and the results obtained by applying various techniques to study aminoglycoside/RNA interaction (Wang & Rando, 1995;Wallis et al, 1995;Werstuck et al, 1996;Famulok & Hu È ttenhofer, 1996;Hendrix et al, 1997;Wang & Tor, 1997a,b). Biochemical data suggest that the inhibitory effect of neomycin on the hammerhead ribozyme is based on competitive binding to the RNA between the polycationic aminoglycoside and the Mg 2 (Clouet-d'Orval et al, 1995), which are required for both folding and catalysis (Dahm & Uhlenbeck, 1991;Long et al, 1995).…”

Section: Introductionmentioning

confidence: 99%

Aminoglycoside binding to the hammerhead ribozyme: a general model for the interaction of cationic antibiotics with RNA 1 1Edited by J. Karn

Hermann

Westhof

1998

Journal of Molecular Biology

181

166

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A variety of drugs inhibit biological key processes by binding to a speci®c RNA component. We focus here on the well-analysed hammerhead ribozyme RNA that is inhibited by aminoglycoside antibiotics, a process considered as a paradigm for studying drug/RNA interactions. With insight gained from molecular dynamics simulations of the ribozyme in the presence of Mg 2 identi®ed by crystallography and of aminoglycosides in solution, a general model for aminoglycoside binding to RNA is proposed. A striking structurally based complementarity between the charged ammonium groups of the aminoglycosides and the metal binding sites in the hammerhead was uncovered. Despite dynamical exibility of the aminoglycosides, several of the intramolecular distances between the charged ammonium groups of the drugs were found to be rather constant. Intramolecular ammonium distances of the aminoglycosides span ranges similar to the interionic distances between Mg 2 in the hammerhead. Successful docking of aminoglycosides to the hammerhead ribozyme could be achieved by positioning the ammonium groups at the sites occupied by Mg 2 . The covalently linked ammonium groups of the aminoglycosides are thus able to complement in space the negative electrostatic potential created by a three-dimensional RNA fold. Consequently, it is suggested that aminoglycoside-derived sugars could constitute a basic set of yardstick synthons ideal for rational and combinatorial synthesis of drugs targeted at biologically relevant RNA folds.

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“…Complexes were generated, resolved, and visualized as described for B. A schematic diagram of the X1 tobramycin-binding RNA aptamer (15) used in this study is presented. The boxed shaded area highlights the tobramycin-binding pocket (17).…”

Section: Cid Designmentioning

confidence: 99%

“…Tobramycin was chosen as the RNA-binding moiety of our CID, because the tobramycinbinding pocket of two RNA aptamers, J6f1 and X1 ( Fig. 1), is defined and indicates that the 6Ј amino group of tobramycin is solvent accessible and can be used as a coupling point (15)(16)(17).…”

Section: Cid Designmentioning

confidence: 99%

Forced engagement of a RNA/protein complex by a chemical inducer of dimerization to modulate gene expression

Harvey

Garneau

2002

Proc. Natl. Acad. Sci. U.S.A.

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A general strategy is described for forcing the engagement of an RNA͞protein complex by using small-molecule ligands. A bivalent molecule was created by linking a protein-binding ligand to an RNA-binding ligand. On presentation of the chemical inducer of dimerization to the RNA by the protein, cooperative binding ensued, resulting in higher-affinity complexes. When the chemical inducer of dimerization was used to target the protein to an mRNA template, the resulting RNA͞protein complex was sufficiently stable to inhibit mRNA translation. This approach provides a logic to modulate gene expression by using small-molecule ligands to recruit protein surfaces to mRNAs.

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Specific binding of aminoglycoside antibiotics to RNA

Cited by 218 publications

References 18 publications

Advances in Aptamer-Based Biosensors for Food Safety

Advances in Aptamer-Based Biosensors for Food Safety

Aminoglycoside binding to the hammerhead ribozyme: a general model for the interaction of cationic antibiotics with RNA 1 1Edited by J. Karn

Forced engagement of a RNA/protein complex by a chemical inducer of dimerization to modulate gene expression

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