Abstract:
:Oligonucleotide models of ribosomal RNA domains are powerful tools to study the binding and molecular recognition of antibiotics that interfere with bacterial translation. Techniques such as selective chemical modification, fluorescence labeling and mutations are cumbersome for the whole ribosome but readily applicable to model RNAs, which are readily crystallized and often give rise to higher resolution crystal structures suitable for detailed analysis of ligand-RNA interactions. Here, we have investigated the HX RNA construct which contains two adjacent ligand binding regions of helix h44 in 16S ribosomal RNA. High-resolution crystal structure analysis confirmed that the HX RNA is a faithful structural model of the ribosomal target. Solution studies showed that HX RNA carrying a fluorescent 2-aminopurine modification provides a model system that can be used to monitor ligand binding to both the ribosomal decoding site and, through an indirect effect, the hygromycin B interaction region.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Dibrov SM,Parsons J,Hermann Tdoi
10.1093/nar/gkq159subject
Has Abstractpub_date
2010-07-01 00:00:00pages
4458-65issue
13eissn
0305-1048issn
1362-4962pii
gkq159journal_volume
38pub_type
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