Click here to close
Hello! We notice that you are using Internet Explorer, which is not supported by Xenbase and may cause the site to display incorrectly.
We suggest using a current version of Chrome,
FireFox, or Safari.
Xenopus laevis 18S ribosomal RNA: experimental determination of secondary structural elements, and locations of methyl groups in the secondary structure model.
Atmadja J, Brimacombe R, Maden BE.
???displayArticle.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.
Brand,
Biosynthesis of a hypermodified nucleotide in Saccharomyces carlsbergensis 17S and HeLa-cell 18S ribosomal ribonucleic acid.
1978, Pubmed
Brand,
Biosynthesis of a hypermodified nucleotide in Saccharomyces carlsbergensis 17S and HeLa-cell 18S ribosomal ribonucleic acid.
1978,
Pubmed Brimacombe,
The structure of ribosomal RNA and its organization relative to ribosomal protein.
1983,
Pubmed Carbon,
The complete nucleotide sequence of the ribosomal 16-S RNA from Excherichia coli. Experimental details and cistron heterogeneities.
1979,
Pubmed Chan,
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.
1984,
Pubmed
,
Xenbase Donis-Keller,
Mapping adenines, guanines, and pyrimidines in RNA.
1977,
Pubmed Douthwaite,
Higher order structure in the 3'-minor domain of small subunit ribosomal RNAs from a gram negative bacterium, a gram positive bacterium and a eukaryote.
1983,
Pubmed Ehresmann,
The topography of the 5' end of 16-S RNA in the presence and absence of ribosomal proteins S4 and S20.
1980,
Pubmed Fox,
5S RNA secondary structure.
1975,
Pubmed
,
Xenbase Glotz,
Secondary structure of the large subunit ribosomal RNA from Escherichia coli, Zea mays chloroplast, and human and mouse mitochondrial ribosomes.
1981,
Pubmed Glotz,
An experimentally-derived model for the secondary structure of the 16S ribosomal RNA from Escherichia coli.
1980,
Pubmed Gupta,
Sequence of the 16S Ribosomal RNA from Halobacterium volcanii, an Archaebacterium.
1983,
Pubmed Hughes,
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.
1978,
Pubmed
,
Xenbase Khan,
Extensive homologies between the methylated nucleotide sequences in several vertebrate ribosomal ribonucleic acids.
1978,
Pubmed
,
Xenbase Klootwijk,
Analysis of the methylation sites in yeast ribosomal RNA.
1973,
Pubmed Köchel,
Nucleotide sequence of the Aspergillus nidulans mitochondrial gene coding for the small ribosomal subunit RNA: homology to E. coli 16S rRNA.
1981,
Pubmed Maden,
The methylated nucleotide sequences in HELA cell ribosomal RNA and its precursors.
1974,
Pubmed Maden,
18S coding sequences in amplified ribosomal DNA from Xenopus laevis oocytes are highly homogeneous, unmethylated, and lack major open reading frames.
1982,
Pubmed
,
Xenbase Maden,
Partial mapping of methylated sequences in Xenopus laevis ribosomal RNA by preparative hybridization to cloned fragments of ribosomal DNA.
1979,
Pubmed
,
Xenbase Maly,
Refined secondary structure models for the 16S and 23S ribosomal RNA of Escherichia coli.
1983,
Pubmed Man'kin,
[Model of the secondary structure of eukaryotic ribosomal 18 S rRNA].
1981,
Pubmed Mankin,
Modification of 18 S rRNA in the 40 S ribosomal subunit of yeast with dimethyl sulfate.
1981,
Pubmed Maxam,
A new method for sequencing DNA.
1977,
Pubmed Olsen,
Secondary structure of the Dictyostelium discoideum small subunit ribosomal RNA.
1983,
Pubmed
,
Xenbase Ross,
Experimental determination of interacting sequences in ribosomal RNA.
1979,
Pubmed Ross,
Application of a rapid gel method to the sequencing of fragments of 16S ribosomal RNA from Escherichia coli.
1978,
Pubmed Rubtsov,
The structure of the yeast ribosomal RNA genes. I. The complete nucleotide sequence of the 18S ribosomal RNA gene from Saccharomyces cerevisiae.
1980,
Pubmed Salim,
Nucleotide sequence encoding the 5' end of Xenopus laevis 18S rRNA.
1980,
Pubmed
,
Xenbase Salim,
Nucleotide sequence of Xenopus laevis 18S ribosomal RNA inferred from gene sequence.
1981,
Pubmed
,
Xenbase Sor,
[Nucleotide sequence of the gene for the mitochondrial 15S ribosomal RNA of yeast].
1980,
Pubmed Stiegler,
A general secondary-structure model for procaryotic and eucaryotic RNAs from the small ribosomal subunits.
1981,
Pubmed
,
Xenbase Székely,
Use of polynucleotide kinase in fingerprinting non-radioactive nucleic acids.
1969,
Pubmed Thomas,
N4-Acetylcytidine. A previously unidentified labile component of the small subunit of eukaryotic ribosomes.
1978,
Pubmed Torczynski,
The complete nucleotide sequence of the rat 18S ribosomal RNA gene and comparison with the respective yeast and frog genes.
1983,
Pubmed
,
Xenbase Veldman,
The primary and secondary structure of yeast 26S rRNA.
1981,
Pubmed Zwieb,
Secondary structure comparisons between small subunit ribosomal RNA molecules from six different species.
1981,
Pubmed
,
Xenbase
