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Literature DB >> 2300554

Higher order structural elements in ribosomal RNAs: pseudo-knots and the use of noncanonical pairs.

Abstract

The data base of prokaryotic small subunit ribosomal RNAs alone now numbers more than 400 sequences, while that for the large subunit rRNAs numbers more than 70 when eukaryotic, mitochondrial, and plastid sequences are also included. Comparisons among these rRNA sequences reveal a number of positions that covary in composition, suggestive of higher order structural elements; 5 such structures are reported for the small subunit rRNA and 15 for the large subunit rRNA. While some of these are properly (small) secondary structural elements, the majority would have to be classified as more complex "tertiary" interactions, which in some cases bring together diverse areas in the secondary structural diagram. A number of the covariances are not of the canonical type, indicating non-Watson-Crick interactions.

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Year: 1990 PMID： 2300554 PMCID： PMC53325 DOI： 10.1073/pnas.87.2.663

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

18 in total

1. Transfer RNA shields specific nucleotides in 16S ribosomal RNA from attack by chemical probes.

Authors: D Moazed; H F Noller
Journal: Cell Date: 1986-12-26 Impact factor: 41.582

Review 2. Bacterial evolution.

Authors: C R Woese
Journal: Microbiol Rev Date: 1987-06

3. A compilation of large subunit RNA sequences presented in a structural format.

Authors: R R Gutell; G E Fox
Journal: Nucleic Acids Res Date: 1988 Impact factor: 16.971

4. Secondary structure model for bacterial 16S ribosomal RNA: phylogenetic, enzymatic and chemical evidence.

Authors: C R Woese; L J Magrum; R Gupta; R B Siegel; D A Stahl; J Kop; N Crawford; J Brosius; R Gutell; J J Hogan; H F Noller
Journal: Nucleic Acids Res Date: 1980-05-24 Impact factor: 16.971

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Authors: C R Woese; R Gutell; R Gupta; H F Noller
Journal: Microbiol Rev Date: 1983-12

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Authors: R R Gutell; B Weiser; C R Woese; H F Noller
Journal: Prog Nucleic Acid Res Mol Biol Date: 1985

7. Secondary structure model for 23S ribosomal RNA.

Authors: H F Noller; J Kop; V Wheaton; J Brosius; R R Gutell; A M Kopylov; F Dohme; W Herr; D A Stahl; R Gupta; C R Waese
Journal: Nucleic Acids Res Date: 1981-11-25 Impact factor: 16.971

8. Evolutionary relationships amongst archaebacteria. A comparative study of 23 S ribosomal RNAs of a sulphur-dependent extreme thermophile, an extreme halophile and a thermophilic methanogen.

Authors: H Leffers; J Kjems; L Ostergaard; N Larsen; R A Garrett
Journal: J Mol Biol Date: 1987-05-05 Impact factor: 5.469

9. Localisation of a series of intra-RNA cross-links in the secondary and tertiary structure of 23S RNA, induced by ultraviolet irradiation of Escherichia coli 50S ribosomal subunits.

Authors: W Stiege; C Glotz; R Brimacombe
Journal: Nucleic Acids Res Date: 1983-03-25 Impact factor: 16.971

10. Higher order structure in ribosomal RNA.

Authors: R R Gutell; H F Noller; C R Woese
Journal: EMBO J Date: 1986-05 Impact factor: 11.598

52 in total

1. Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: application of a method called SERF.

Authors: U Stelzl; C M Spahn; K H Nierhaus
Journal: Proc Natl Acad Sci U S A Date: 2000-04-25 Impact factor: 11.205

2. Covariance of complementary rRNA loop nucleotides does not necessarily represent functional pseudoknot formation in vivo.

Authors: N S Chernyaeva; E J Murgola
Journal: J Bacteriol Date: 2000-10 Impact factor: 3.490

3. Higher order interactions in 23s rRNA.

Authors: N Larsen
Journal: Proc Natl Acad Sci U S A Date: 1992-06-01 Impact factor: 11.205

4. A phylogenetic analysis of the myxobacteria: basis for their classification.

Authors: L Shimkets; C R Woese
Journal: Proc Natl Acad Sci U S A Date: 1992-10-15 Impact factor: 11.205

5. Identifying constraints on the higher-order structure of RNA: continued development and application of comparative sequence analysis methods.

Authors: R R Gutell; A Power; G Z Hertz; E J Putz; G D Stormo
Journal: Nucleic Acids Res Date: 1992-11-11 Impact factor: 16.971

10. Phylogenetic characterization of the epibiotic bacteria associated with the hydrothermal vent polychaete Alvinella pompejana.

Authors: A Haddad; F Camacho; P Durand; S C Cary
Journal: Appl Environ Microbiol Date: 1995-05 Impact factor: 4.792