Literature DB >> 16581175

The ribosomal A-site as an inspiration for the design of RNA binders.

Y Tor1.   

Abstract

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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Year:  2006        PMID: 16581175     DOI: 10.1016/j.biochi.2006.03.005

Source DB:  PubMed          Journal:  Biochimie        ISSN: 0300-9084            Impact factor:   4.079


  19 in total

1.  Click dimers to target HIV TAR RNA conformation.

Authors:  Sunil Kumar; Patrick Kellish; W Edward Robinson; Deyun Wang; Daniel H Appella; Dev P Arya
Journal:  Biochemistry       Date:  2012-03-09       Impact factor: 3.162

2.  Toward targeting RNA structure: branched peptides as cell-permeable ligands to TAR RNA.

Authors:  David I Bryson; Wenyu Zhang; Patrick M McLendon; Theresa M Reineke; Webster L Santos
Journal:  ACS Chem Biol       Date:  2011-10-28       Impact factor: 5.100

3.  Nanopore analysis of individual RNA/antibiotic complexes.

Authors:  Meni Wanunu; Swati Bhattacharya; Yun Xie; Yitzhak Tor; Aleksei Aksimentiev; Marija Drndic
Journal:  ACS Nano       Date:  2011-11-16       Impact factor: 15.881

4.  Recognition of HIV TAR RNA by triazole linked neomycin dimers.

Authors:  Sunil Kumar; Dev P Arya
Journal:  Bioorg Med Chem Lett       Date:  2011-06-21       Impact factor: 2.823

5.  Target Flexibility in RNA-Ligand Docking Modeled by Elastic Potential Grids.

Authors:  Dennis M Krüger; Johannes Bergs; Sina Kazemi; Holger Gohlke
Journal:  ACS Med Chem Lett       Date:  2011-04-12       Impact factor: 4.345

6.  High-confidence mapping of chemical compounds and protein complexes reveals novel aspects of chemical stress response in yeast.

Authors:  Thiago M Venancio; S Balaji; L Aravind
Journal:  Mol Biosyst       Date:  2009-08-28

7.  Selectively guanidinylated aminoglycosides as antibiotics.

Authors:  Richard J Fair; Mary E Hensler; Wdee Thienphrapa; Quang N Dam; Victor Nizet; Yitzhak Tor
Journal:  ChemMedChem       Date:  2012-05-25       Impact factor: 3.466

8.  Antibiotic selectivity for prokaryotic vs. eukaryotic decoding sites.

Authors:  Yun Xie; Andrew V Dix; Yitzhak Tor
Journal:  Chem Commun (Camb)       Date:  2010-05-13       Impact factor: 6.222

9.  FRET enabled real time detection of RNA-small molecule binding.

Authors:  Yun Xie; Andrew V Dix; Yitzhak Tor
Journal:  J Am Chem Soc       Date:  2009-12-09       Impact factor: 15.419

10.  Binding of aminoglycoside antibiotics to helix 69 of 23S rRNA.

Authors:  Ann E Scheunemann; William D Graham; Franck A P Vendeix; Paul F Agris
Journal:  Nucleic Acids Res       Date:  2010-01-27       Impact factor: 16.971

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