Stem-loop structures can effectively substitute for an RNA pseudoknot in -1 ribosomal frameshifting

Chien-hung Yu, Mathieu H. Noteborn, Cornelis W A Pleij, René C L Olsthoorn

研究成果: Article

26 引文 (Scopus)

摘要

-1 Programmed ribosomal frameshifting (PRF) in synthesizing the gag-pro precursor polyprotein of Simian retrovirus type-1 (SRV-1) is stimulated by a classical H-type pseudoknot which forms an extended triple helix involving base-base and base-sugar interactions between loop and stem nucleotides. Recently, we showed that mutation of bases involved in triple helix formation affected frameshifting, again emphasizing the role of the triple helix in -1 PRF. Here, we investigated the efficiency of hairpins of similar base pair composition as the SRV-1 gag-pro pseudoknot. Although not capable of triple helix formation they proved worthy stimulators of frameshifting. Subsequent investigation of ∼30 different hairpin constructs revealed that next to thermodynamic stability, loop size and composition and stem irregularities can influence frameshifting. Interestingly, hairpins carrying the stable GAAA tetraloop were significantly less shifty than other hairpins, including those with a UUCG motif. The data are discussed in relation to natural shifty hairpins.

原文English
頁(從 - 到)8952-8959
頁數8
期刊Nucleic acids research
39
發行號20
DOIs
出版狀態Published - 2011 十一月 1

指紋

Mason-Pfizer monkey virus
Ribosomal Frameshifting
RNA
Polyproteins
Base Composition
Thermodynamics
Base Pairing
Nucleotides
Mutation

All Science Journal Classification (ASJC) codes

  • Genetics

引用此文

Yu, Chien-hung ; Noteborn, Mathieu H. ; Pleij, Cornelis W A ; Olsthoorn, René C L. / Stem-loop structures can effectively substitute for an RNA pseudoknot in -1 ribosomal frameshifting. 於: Nucleic acids research. 2011 ; 卷 39, 編號 20. 頁 8952-8959.
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abstract = "-1 Programmed ribosomal frameshifting (PRF) in synthesizing the gag-pro precursor polyprotein of Simian retrovirus type-1 (SRV-1) is stimulated by a classical H-type pseudoknot which forms an extended triple helix involving base-base and base-sugar interactions between loop and stem nucleotides. Recently, we showed that mutation of bases involved in triple helix formation affected frameshifting, again emphasizing the role of the triple helix in -1 PRF. Here, we investigated the efficiency of hairpins of similar base pair composition as the SRV-1 gag-pro pseudoknot. Although not capable of triple helix formation they proved worthy stimulators of frameshifting. Subsequent investigation of ∼30 different hairpin constructs revealed that next to thermodynamic stability, loop size and composition and stem irregularities can influence frameshifting. Interestingly, hairpins carrying the stable GAAA tetraloop were significantly less shifty than other hairpins, including those with a UUCG motif. The data are discussed in relation to natural shifty hairpins.",
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Stem-loop structures can effectively substitute for an RNA pseudoknot in -1 ribosomal frameshifting. / Yu, Chien-hung; Noteborn, Mathieu H.; Pleij, Cornelis W A; Olsthoorn, René C L.

於: Nucleic acids research, 卷 39, 編號 20, 01.11.2011, p. 8952-8959.

研究成果: Article

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AU - Noteborn, Mathieu H.

AU - Pleij, Cornelis W A

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N2 - -1 Programmed ribosomal frameshifting (PRF) in synthesizing the gag-pro precursor polyprotein of Simian retrovirus type-1 (SRV-1) is stimulated by a classical H-type pseudoknot which forms an extended triple helix involving base-base and base-sugar interactions between loop and stem nucleotides. Recently, we showed that mutation of bases involved in triple helix formation affected frameshifting, again emphasizing the role of the triple helix in -1 PRF. Here, we investigated the efficiency of hairpins of similar base pair composition as the SRV-1 gag-pro pseudoknot. Although not capable of triple helix formation they proved worthy stimulators of frameshifting. Subsequent investigation of ∼30 different hairpin constructs revealed that next to thermodynamic stability, loop size and composition and stem irregularities can influence frameshifting. Interestingly, hairpins carrying the stable GAAA tetraloop were significantly less shifty than other hairpins, including those with a UUCG motif. The data are discussed in relation to natural shifty hairpins.

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