The ribosomal A-site as an inspiration for the design of RNA binders.
The specific binding of aminoglycoside antibiotics to the bacterial ribosomal decoding site (A-site) has inspired the study of RNA-small molecules interactions and the search for novel RNA binders. Among the numerous RNA targets studied so far, the A-site holds a unique place. It is among the few truly validated RNA targets for which naturally occurring ligands have been discovered as "cognate" binders. In addition, due to its encapsulating architecture, the A-site is a more discriminating RNA target when compared to other RNA sequences. Previous observations and current challenges for the designers of potent and specific RNA binders are discussed.
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Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA 92093-0358, USA. ytor@ucsd.edu
D000900:Anti-Bacterial Agents / Q000737:chemistry / Q000494:pharmacology; D001665:Binding Sites / Q000235:genetics; D015394:Molecular Structure; D009355:Neomycin / Q000737:chemistry / Q000494:pharmacology; D009690:Nucleic Acid Conformation / Q000187:drug effects; D010303:Paromomycin / Q000737:chemistry / Q000494:pharmacology; D012336:RNA, Ribosomal, 16S / Q000737:chemistry* / Q000235:genetics; D012270:Ribosomes / Q000235:genetics / Q000378:metabolism*; D013329:Structure-Activity Relationship
D000900:Anti-Bacterial Agents; D012336:RNA, Ribosomal, 16S; D010303:Paromomycin; D009355:Neomycin