Analysis of the structure of Tetrahymena nuclear RNAs in vivo: telomerase RNA, the self-splicing rRNA intron, and U2 snRNA - PubMed (original) (raw)

Comparative Study

Analysis of the structure of Tetrahymena nuclear RNAs in vivo: telomerase RNA, the self-splicing rRNA intron, and U2 snRNA

A J Zaug et al. RNA. 1995 Jun.

Abstract

Dimethyl sulfate modification of RNA in living Tetrahymena thermophila allowed assessment of RNA secondary structure and protein association. The self-splicing rRNA intron had the same methylation pattern in vivo as in vitro, indicating that the structures are equivalent and suggesting that this RNA is not stably associated with protein in the nucleolus. Methylation was consistent with the current secondary structure model. Much of telomerase RNA was protected from methylation in vivo, but the A's and C's in the template region were very reactive. Thus, most telomerase is not base paired to telomeres in vivo. Protein-free telomerase RNA adopts a structure different from that in vivo, especially in the template and pseudoknot regions. The U2 snRNA showed methylation protection at the Sm protein-binding sequence and the mRNA branch site recognition sequence. For both telomerase RNA and U2 snRNA, the in vivo methylation pattern corresponded much better to the structure determined by comparative sequence analysis than did the in vitro methylation pattern. Thus, as expected, comparative analysis gives the structure of the RNA in vivo.

PubMed Disclaimer

Similar articles

• Spliceosomal small nuclear RNAs of Tetrahymena thermophila and some possible snRNA-snRNA base-pairing interactions.
  Orum H, Nielsen H, Engberg J. Orum H, et al. J Mol Biol. 1991 Nov 20;222(2):219-32. doi: 10.1016/0022-2836(91)90208-n. J Mol Biol. 1991. PMID: 1960724
• Folding intermediates of a self-splicing RNA: mispairing of the catalytic core.
  Pan J, Woodson SA. Pan J, et al. J Mol Biol. 1998 Jul 24;280(4):597-609. doi: 10.1006/jmbi.1998.1901. J Mol Biol. 1998. PMID: 9677291
• Sequence and proposed secondary structure of the Tetrahymena thermophila U3-snRNA.
  Orum H, Nielsen H, Engberg J. Orum H, et al. Nucleic Acids Res. 1993 May 25;21(10):2511. doi: 10.1093/nar/21.10.2511. Nucleic Acids Res. 1993. PMID: 8506144 Free PMC article. No abstract available.
• RNA tectonics: towards RNA design.
  Westhof E, Masquida B, Jaeger L. Westhof E, et al. Fold Des. 1996;1(4):R78-88. doi: 10.1016/S1359-0278(96)00037-5. Fold Des. 1996. PMID: 9079386 Review.
• Molecular genetics of group I introns: RNA structures and protein factors required for splicing--a review.
  Burke JM. Burke JM. Gene. 1988 Dec 20;73(2):273-94. doi: 10.1016/0378-1119(88)90493-3. Gene. 1988. PMID: 3072260 Review.

Cited by

• Telomerase RNA structural heterogeneity in living human cells detected by DMS-MaPseq.
  Forino NM, Woo JZ, Zaug AJ, Jimenez AG, Edelson E, Cech TR, Rouskin S, Stone MD. Forino NM, et al. bioRxiv [Preprint]. 2024 Aug 29:2023.10.04.560962. doi: 10.1101/2023.10.04.560962. bioRxiv. 2024. PMID: 37873413 Free PMC article. Preprint.
• Suppressing Kaposi's Sarcoma-Associated Herpesvirus Lytic Gene Expression and Replication by RNase P Ribozyme.
  Liu Y, Chen YC, Yan B, Liu F. Liu Y, et al. Molecules. 2023 Apr 21;28(8):3619. doi: 10.3390/molecules28083619. Molecules. 2023. PMID: 37110852 Free PMC article.
• A RNase P Ribozyme Inhibits Gene Expression and Replication of Hepatitis B Virus in Cultured Cells.
  Yan B, Liu Y, Chen YC, Liu F. Yan B, et al. Microorganisms. 2023 Mar 3;11(3):654. doi: 10.3390/microorganisms11030654. Microorganisms. 2023. PMID: 36985227 Free PMC article.
• Rock, scissors, paper: How RNA structure informs function.
  Assmann SM, Chou HL, Bevilacqua PC. Assmann SM, et al. Plant Cell. 2023 May 29;35(6):1671-1707. doi: 10.1093/plcell/koad026. Plant Cell. 2023. PMID: 36747354 Free PMC article.
• Structural characterization of NORAD reveals a stabilizing role of spacers and two new repeat units.
  Chorostecki U, Saus E, Gabaldón T. Chorostecki U, et al. Comput Struct Biotechnol J. 2021 May 29;19:3245-3254. doi: 10.1016/j.csbj.2021.05.045. eCollection 2021. Comput Struct Biotechnol J. 2021. PMID: 34141143 Free PMC article.

References

1. 1. J Biochem. 1975 Apr;77(4):783-93 - PubMed
2. 1. RNA. 1995 May;1(3):284-92 - PubMed
3. 1. Biochemistry. 1983 May 10;22(10):2390-7 - PubMed
4. 1. Science. 1985 Jan 11;227(4683):134-40 - PubMed
5. 1. Nature. 1985 Feb 28-Mar 6;313(6005):795-8 - PubMed

Publication types

MeSH terms

Substances

LinkOut - more resources

• Full Text Sources

  • Europe PubMed Central
  • HighWire
  • PubMed Central