ArticleNucleic acids research2005
Mapping the interaction of SmpB with ribosomes by footprinting of ribosomal RNA.
Article in Nucleic acids research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 26 citations in OpenAlex.
- Site-specific fluorescence dynamics in an RNA 'thermometer' reveals the role of ribosome binding in its temperature-sensitive switch function.Nucleic acids research · 2015Article
- Resolving nonstop translation complexes is a matter of life or death.Journal of bacteriology · 2014Review
- The tmRNA ribosome-rescue system.Advances in protein chemistry and structural biology · 2012Review
- tRNA/mRNA Mimicry by tmRNA and SmpB in Trans-Translation.Journal of nucleic acids · 2011Article
- Role of the C-terminal tail of SmpB in the early stage of trans-translation.RNA (New York, N.Y.) · 2010Article
- Beyond ribosome rescue: tmRNA and co-translational processes.FEBS letters · 2010Review
- Ribosomal protein S12 and aminoglycoside antibiotics modulate A-site mRNA cleavage and transfer-messenger RNA activity in Escherichia coli.The Journal of biological chemistry · 2009Article
- SmpB contributes to reading frame selection in the translation of transfer-messenger RNA.Journal of molecular biology · 2009Article
- Ribosome hijacking: a role for small protein B during trans-translation.EMBO reports · 2009Article
- Escherichia coli tmRNA lacking pseudoknot 1 tags truncated proteins in vivo and in vitro.RNA (New York, N.Y.) · 2009Article
- Functional SmpB-ribosome interactions require tmRNA.The Journal of biological chemistry · 2007Article
- A functional interaction of SmpB with tmRNA for determination of the resuming point of trans-translation.RNA (New York, N.Y.) · 2007Article
- Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Structure probing of tmRNA in distinct stages of trans-translation.RNA (New York, N.Y.) · 2007Article
- Scaffolding as an organizing principle in trans-translation. The roles of small protein B and ribosomal protein S1.The Journal of biological chemistry · 2007Article
- Interaction of SmpB with ribosome from directed hydroxyl radical probing.Nucleic acids research · 2007Article
- Small protein B interacts with the large and the small subunits of a stalled ribosome during trans-translation.Nucleic acids research · 2006Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In trans-translation transfer messenger RNA (tmRNA) and small protein B (SmpB) rescue ribosomes stalled on truncated or in other ways problematic mRNAs. SmpB promotes the binding of tmRNA to the ribosome but there is uncertainty about the number of participating SmpB molecules as well as their ribosomal location. Here, the interaction of SmpB with ribosomal subunits and ribosomes was studied by isolation of SmpB containing complexes followed by chemical modification of ribosomal RNA with dimethyl sulfate, kethoxal and hydroxyl radicals. The results show that SmpB binds 30S and 50S subunits with 1:1 molar ratios and the 70S ribosome with 2:1 molar ratio. SmpB-footprints are similar on subunits and the ribosome. In the 30S subunit, SmpB footprints nucleotides that are in the vicinity of the P-site facing the E-site, and in the 50S subunit SmpB footprints nucleotides that are located below the L7/L12 stalk in the 3D structure of the ribosome. Based on these results, we suggest a mechanism where two molecules of SmpB interact with tmRNA and the ribosome during trans-translation. The first SmpB molecule binds near the factor-binding site on the 50S subunit helping tmRNA accommodation on the ribosome, whereas the second SmpB molecule may functionally substitute for a missing anticodon stem-loop in tmRNA during later steps of trans-translation.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.