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 | |
| Rfam | RF01086 |
| Other data | |
| RNA type | Cis-reg |
| Domain(s) | Eukaryote Prokaryote |
| PDB structures | PDBe |
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
- 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.
- 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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