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PMID: 6424099 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Xenopus laevis 18S ribosomal RNA: experimental determination of secondary structural elements, and locations of methyl groups in the secondary structure model.

Nucleic acids research ·Vol. 12 ·No. 6 ·1984-03-26 ·Pages 2649-67

Atmadja J, Brimacombe R, Maden BE

Abstract

18S ribosomal RNA from X. laevis was subjected to partial digestion with ribonucleases A or T1 under a variety of conditions, and base-paired fragments were isolated. Sequence analysis of the fragments enabled five base-paired secondary structural elements of the 18S RNA to be established. Four of these elements (covering bases 221-256, 713-757, 1494-1555 and 1669-1779) confirm our previous secondary structure predictions, whereas the fifth (comprising bases 1103-1125) represents a phylogenetically conserved "switch" structure, which can also form in prokaryotic 16S RNA. The results are incorporated into a refined model of the 18S RNA secondary structure, which also includes the locations of the many methyl groups in X. laevis 18S RNA. In general the methyl groups occur in non-helical regions, at hairpin loop ends, or at helix boundaries and imperfections. One large cluster of 2'-O-methyl groups occurs in a region of complicated secondary structure in the 5'-one third of the molecule.

MeSH Terms
Animals Base Composition Base Sequence Cells, Cultured Kidney/metabolism Molecular Weight Nucleic Acid Conformation RNA, Ribosomal/genetics Ribonuclease T1 Ribonuclease, Pancreatic Xenopus
Chemicals
RNA, Ribosomal Ribonuclease T1 Ribonuclease, Pancreatic
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Atmadja J
Brimacombe R
Maden B E
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35 references, click to expand
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/12.6.2649
Published
1984-03-26
Pages
2649-67
Language
English
Region
England
NLM ID
0411011
PMCID
PMC318697
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/12.6.2649 PMC Full Text View journal details
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