This example of a naturally occurring pseudoknot is found in the RNA component of human telomerase. Sequence from Chen and Greider (2005).[1]Three dimensional structure of almost the same pseudoknot from telomerase RNA. (A) sticks (B) backbone. The pdb-file is based on PDB: 1YMO. Colors: AUCG
A pseudoknot is a nucleic acid secondary structure containing at least two stem-loop structures in which half of one stem is intercalated between the two halves of another stem. The pseudoknot was first recognized in the turnip yellow mosaic virus in 1982.[2] Pseudoknots fold into knot-shaped three-dimensional conformations but are not true topological knots. These structures are categorized as cross (X) topology within the circuit topology framework, which, in contrast to knot theory, is a contact-based approach.
^Chen, JL; Greider, CW (7 June 2005). "Functional analysis of the pseudoknot structure in human telomerase RNA". Proceedings of the National Academy of Sciences of the United States of America. 102 (23): 8077–9. Bibcode:2005PNAS..102.8080C. doi:10.1073/pnas.0502259102. PMC 1149427. PMID 15849264.
^Staple DW, Butcher SE (June 2005). "Pseudoknots: RNA structures with diverse functions". PLOS Biol. 3 (6): e213. doi:10.1371/journal.pbio.0030213. PMC 1149493. PMID 15941360.
A pseudoknot is a nucleic acid secondary structure containing at least two stem-loop structures in which half of one stem is intercalated between the two...
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classified into additional categories including, for example, tetraloops, pseudoknots, and stem-loops. Topological approaches can be used to categorize and...
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second stem and loop. This causes formation of pseudoknots with two stems and two loops. Pseudoknots are functional elements in RNA structure having...
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includes one pseudoknot, but one stem involved in this apparent pseudoknot exhibits only one example of covariation, so the existence of the pseudoknot is unclear...
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frameshift caused by a slippery sequence (UUUAAAC) and a downstream RNA pseudoknot at the end of open reading frame ORF1a. The ribosomal frameshift allows...
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expression of the repZ gene. repZ expression requires formation of a pseudoknot in the mRNA. repZ is repressed by a small antisense Inc RNA, which binds...
nucleic acid secondary structure, and two-page book embeddings represent pseudoknots. Other applications of book embeddings include abstract algebra and knot...
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