Skip to main content
Biochemical Journal logoLink to Biochemical Journal
. 1988 Jan 15;249(2):459–464. doi: 10.1042/bj2490459

Pseudouridine distribution in mammalian 18 S ribosomal RNA. A major cluster in the central region of the molecule.

E H Maden 1, J A Wakeman 1
PMCID: PMC1148725  PMID: 3342024

Abstract

Human and rodent 18 S rRNA contain about 38 pseudouridine residues. By correlating RNA oligonucleotide data with complete sequence data derived from ribosomal DNA, 30 pseudouridine residues can be located in the RNA sequence, either exactly or to within two or three residues. Pseudouridine and 2'-O-methyl groups are interspersed throughout mammalian 18 S rRNA, but not in closely parallel fashion. Whereas the largest cluster of 2'-O-methyl groups is in the 5' one-third of the molecule, the greatest concentration of pseudouridine is in the central one-third of the molecule.

Full text

PDF
459

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Amaldi F., Attardi G. Partial sequence analysis of ribosomal RNA from HeLa cells. I. Oligonucleotide pattern of 28 s and 18 s RNA after pancreatic ribonuclease digestion. J Mol Biol. 1968 May 14;33(3):737–755. doi: 10.1016/0022-2836(68)90317-3. [DOI] [PubMed] [Google Scholar]
  2. Atmadja J., Brimacombe R., Maden B. E. Xenopus laevis 18S ribosomal RNA: experimental determination of secondary structural elements, and locations of methyl groups in the secondary structure model. Nucleic Acids Res. 1984 Mar 26;12(6):2649–2667. doi: 10.1093/nar/12.6.2649. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Chan Y. L., Gutell R., Noller H. F., Wool I. G. The nucleotide sequence of a rat 18 S ribosomal ribonucleic acid gene and a proposal for the secondary structure of 18 S ribosomal ribonucleic acid. J Biol Chem. 1984 Jan 10;259(1):224–230. [PubMed] [Google Scholar]
  4. Choi Y. C., Busch H. Modified nucleotides in T1 RNase oligonucleotides of 18S ribosomal RNA of the Novikoff hepatoma. Biochemistry. 1978 Jun 27;17(13):2551–2560. doi: 10.1021/bi00606a015. [DOI] [PubMed] [Google Scholar]
  5. Gonzalez I. L., Schmickel R. D. The human 18S ribosomal RNA gene: evolution and stability. Am J Hum Genet. 1986 Apr;38(4):419–427. [PMC free article] [PubMed] [Google Scholar]
  6. Hughes D. G., Maden B. E. The pseudouridine contents of the ribosomal ribonucleic acids of three vertebrate species. Numerical correspondence between pseudouridine residues and 2'-O-methyl groups is not always conserved. Biochem J. 1978 Jun 1;171(3):781–786. doi: 10.1042/bj1710781. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Jeanteur P., Amaldi F., Attardi G. Partial sequence analysis of ribosomal RNA from HeLa cells. II. Evidence for sequences of non-ribosmal type in 45 and 32 s ribosomal RNA precursors. J Mol Biol. 1968 May 14;33(3):757–775. doi: 10.1016/0022-2836(68)90318-5. [DOI] [PubMed] [Google Scholar]
  8. Khan M. S., Maden B. E. Nucleotide sequences within the ribosomal ribonucleic acids of HeLa cells, Xenopus laevis and chick embryo fibroblasts. J Mol Biol. 1976 Feb 25;101(2):235–254. doi: 10.1016/0022-2836(76)90375-2. [DOI] [PubMed] [Google Scholar]
  9. Khan M. S., Salim M., Maden B. E. Extensive homologies between the methylated nucleotide sequences in several vertebrate ribosomal ribonucleic acids. Biochem J. 1978 Mar 1;169(3):531–542. doi: 10.1042/bj1690531. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Maden B. E., Dent C. L., Farrell T. E., Garde J., McCallum F. S., Wakeman J. A. Clones of human ribosomal DNA containing the complete 18 S-rRNA and 28 S-rRNA genes. Characterization, a detailed map of the human ribosomal transcription unit and diversity among clones. Biochem J. 1987 Sep 1;246(2):519–527. doi: 10.1042/bj2460519. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Maden B. E., Forbes J., de Jonge P., Klootwijk J. Presence of a hypermodified nucleotide in HeLa cell 18 S and Saccharomyces carlsbergensis 17 S ribosomal RNAs. FEBS Lett. 1975 Nov 1;59(1):60–63. doi: 10.1016/0014-5793(75)80341-3. [DOI] [PubMed] [Google Scholar]
  12. Maden B. E.H., Forbes J. Standard and non standard products in combined T(1) plus pancreatic RNAase fingerprints of HeLa cell rRNA and its precursors. FEBS Lett. 1972 Dec 15;28(3):289–292. doi: 10.1016/0014-5793(72)80733-6. [DOI] [PubMed] [Google Scholar]
  13. Maden B. E. Identification of the locations of the methyl groups in 18 S ribosomal RNA from Xenopus laevis and man. J Mol Biol. 1986 Jun 20;189(4):681–699. doi: 10.1016/0022-2836(86)90498-5. [DOI] [PubMed] [Google Scholar]
  14. Maden B. E., Khan M. S. Methylated nucleotide sequences in HeLa-cell ribosomal ribonucleic acid. Correlation between the results from 'fingerprinting' hydrolysates obtained by digestion with T1 ribonuclease and with T1 plus pancreatic ribonuclease. Biochem J. 1977 Oct 1;167(1):211–221. doi: 10.1042/bj1670211. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Maden B. E. Methylation map of Xenopus laevis ribosomal RNA. Nature. 1980 Nov 20;288(5788):293–296. doi: 10.1038/288293a0. [DOI] [PubMed] [Google Scholar]
  16. Maden B. E., Reeder R. H. Partial mapping of methylated sequences in Xenopus laevis ribosomal RNA by preparative hybridization to cloned fragments of ribosomal DNA. Nucleic Acids Res. 1979 Mar;6(3):817–830. doi: 10.1093/nar/6.3.817. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Maden B. E., Salim M. The methylated nucleotide sequences in HELA cell ribosomal RNA and its precursors. J Mol Biol. 1974 Sep 5;88(1):133–152. doi: 10.1016/0022-2836(74)90299-x. [DOI] [PubMed] [Google Scholar]
  18. McCallum F. S., Maden B. E. Human 18 S ribosomal RNA sequence inferred from DNA sequence. Variations in 18 S sequences and secondary modification patterns between vertebrates. Biochem J. 1985 Dec 15;232(3):725–733. doi: 10.1042/bj2320725. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Nelles L., Fang B. L., Volckaert G., Vandenberghe A., De Wachter R. Nucleotide sequence of a crustacean 18S ribosomal RNA gene and secondary structure of eukaryotic small subunit ribosomal RNAs. Nucleic Acids Res. 1984 Dec 11;12(23):8749–8768. doi: 10.1093/nar/12.23.8749. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Raynal F., Michot B., Bachellerie J. P. Complete nucleotide sequence of mouse 18 S rRNA gene: comparison with other available homologs. FEBS Lett. 1984 Feb 27;167(2):263–268. doi: 10.1016/0014-5793(84)80139-8. [DOI] [PubMed] [Google Scholar]
  21. Salim M., Maden B. E. Nucleotide sequence encoding the 5' end of Xenopus laevis 18S rRNA. Nucleic Acids Res. 1980 Jul 11;8(13):2871–2884. doi: 10.1093/nar/8.13.2871. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Saponara A. G., Enger M. D. The isolation from ribonucleic acid of substituted uridines containing alpha-aminobutyrate moieties derived from methionine. Biochim Biophys Acta. 1974 Apr 27;349(1):61–77. doi: 10.1016/0005-2787(74)90009-4. [DOI] [PubMed] [Google Scholar]
  23. Torczynski R. M., Fuke M., Bollon A. P. Cloning and sequencing of a human 18S ribosomal RNA gene. DNA. 1985 Aug;4(4):283–291. doi: 10.1089/dna.1985.4.283. [DOI] [PubMed] [Google Scholar]
  24. Torczynski R., Bollon A. P., Fuke M. The complete nucleotide sequence of the rat 18S ribosomal RNA gene and comparison with the respective yeast and frog genes. Nucleic Acids Res. 1983 Jul 25;11(14):4879–4890. doi: 10.1093/nar/11.14.4879. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Vaughan M. H., Jr, Soeiro R., Warner J. R., Darnell J. E., Jr The effects of methionine deprivation on ribosome synthesis in HeLa cells. Proc Natl Acad Sci U S A. 1967 Oct;58(4):1527–1534. doi: 10.1073/pnas.58.4.1527. [DOI] [PMC free article] [PubMed] [Google Scholar]

Articles from Biochemical Journal are provided here courtesy of The Biochemical Society

RESOURCES