CUUCGG hairpins: extraordinarily stable RNA secondary structures associated with various biochemical processes - PubMed (original) (raw)

CUUCGG hairpins: extraordinarily stable RNA secondary structures associated with various biochemical processes

C Tuerk et al. Proc Natl Acad Sci U S A. 1988 Mar.

Abstract

The mRNA of bacteriophage T4 contains a strikingly abundant intercistronic hairpin. Within the 55 kilobases of known T4 sequence, the hexanucleotide sequence CTTCGG is found 13 times in the DNA strand equivalent to mRNA sequences. In 12 of those occurrences, the sequence is flanked by inverted repeats predictive of RNA hairpins with UUCG in the loop. Avian myeloblastosis virus reverse transcriptase, which can traverse hairpins of larger calculated stability, terminates efficiently at these CUUCGG hairpins. Thermal denaturation studies of model hairpins show that the loop sequence UUCG dramatically stabilizes RNA hairpins when compared to a control sequence. These data, when combined with previously described parameters of helix stability, suggest that T4 has utilized this loop sequence to optimize the stability of intercistronic hairpins. The stability of CUUCGG hairpins is also utilized in the RNAs of many organisms besides T4.

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References

    1. Biochemistry. 1984 Dec 18;23(26):6327-34 - PubMed
    1. J Mol Biol. 1981 Dec 15;153(3):545-68 - PubMed
    1. Nucleic Acids Res. 1986 Oct 10;14(19):7751-65 - PubMed
    1. Proc Natl Acad Sci U S A. 1984 Dec;81(23):7373-7 - PubMed
    1. Cell. 1986 Aug 29;46(5):697-704 - PubMed

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