Long range pseudoknots

A long range pseudoknot is a pseudoknot containing a long loop region, and may be a mechanism of translational control.

Long range pseudoknot
Secondary structure of the long range pseudoknot
Identifiers
RfamRF01086
Other data
RNA typeCis-reg
Domain(s)Eukaryote Prokaryote
PDB structuresPDBe

A long range pseudoknot is thought to negatively regulate the translation of the IF3-L35-L20 operon in E. coli. This operon encodes the translation initiation factor IF-3 and ribosomal proteins L35 and L20. In this example, the RNA-RNA interaction occurs between nucleotides separated by a 300 nucleotide loop region.[1]

A long range pseudoknot is also believed to be required for the activity of the Neurospora VS ribozyme.[2]

References

  1. Chiaruttini C, Milet M, Springer M (August 1996). "A long-range RNA-RNA interaction forms a pseudoknot required for translational control of the IF3-L35-L20 ribosomal protein operon in Escherichia coli". The EMBO Journal. 15 (16): 4402–4413. PMC 452164. PMID 8861967.
  2. Rastogi T, Beattie TL, Olive JE, Collins RA (June 1996). "A long-range pseudoknot is required for activity of the Neurospora VS ribozyme". The EMBO Journal. 15 (11): 2820–2825. PMC 450219. PMID 8654379.
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