5S RNA Structure and Interaction with Transcription Factor A. 1. Ribonuclease Probe of the Structure of 5S RNA from Xenopus laevis Oocytes

Janet Andersen, Nicholas Delihas*, Jay S. Hanas, Cheng-Wen Wu Lee

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

23 Scopus citations

Abstract

The structure of Xenopus laevis oocyte (Xlo) 5S ribosomal RNA has been probed with single-strand-specific ribonucleases T1(T2, and A with double-strand-specific ribonuclease V1 from cobra venom. The digestion of 5′- or 3′-labeled renatured 5S RNA samples followed by gel purification of the digested samples allowed the determination of primary cleavage sites. Results of these ribonuclease digestions provide support for the generalized 5S RNA secondary structural model derived from comparative sequence analysis. However, three putative single-stranded regions of the molecule exhibited unexpected V1 cuts, found at C36, U73, U76, and U102. These V1 cuts reflect additional secondary structural features of the RNA including A·G base pairs and support the extended base pairing in the stem containing helices IV and V which was proposed by Stahl et al. [Stahl, D. A., Luehrsen, K. R., Woese, C. R., & Pace, N. R. (1981) Nucleic Acids Res. 9, 6129-6137], A conserved structure for helix V having a commnn unpaired uracil residue at Xlo position 84 is proposed for all eukaryotic 5S RNAs. Our results are compared with nuclease probes of other 5S RNAs.

Original languageEnglish
Pages (from-to)5752-5759
Number of pages8
JournalBiochemistry
Volume23
Issue number24
DOIs
StatePublished - 1 Jan 1984

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