Stem-loop structures can effectively substitute for an RNA pseudoknot in-1 ribosomal frameshifting

Biophysical Structural ChemistrySupramolecular & Biomaterials Chemistr

Five pseudoknots are present at the 204 nucleotides long 3' noncoding region of tobacco mosak virus RNA

Biophysical Structural Chemistr

Structural motifs in the RNA encoded by the early nodulation gene enod40 of soybean

Biophysical Structural ChemistryAnimal science

The 3′-untranslated region of the α2C-adrenergic receptor mRNA impedes translation of the receptor message

We report that tyro subtypes of alpha(2)-adrenergic receptors (alpha(2A/D)- and alpha(2C)-AR) are ectopically expressed with dramatically different efficiencies and that this difference is due to a 288-nucleotide (nt) segment in the 3'-untranslated region (3'-UTR) of the alpha(2C)-AR mRNA that impairs translational processing, NIH-3T3 fibroblasts mere transfected with receptor constructs (coding region plus 552 nt, alpha(2C)-AR; coding region plus 1140 nt, alpha(2A/D)-AR) and a vector conferring G418 resistance. Transcription was driven by the murine sarcoma virus promoter element, and the receptor gene segment was upstream of an SV40 polyadenylation cassette. Drug-resistant transfectants were evaluated for expression of receptor mRNA and protein, 90% of the NIH-3T3 alpha(2C)-AR transfectants expressed receptor mRNA, but only 14% of the clonal cell Lines expressed receptor protein. In contrast, 90% of the NIH-3T3 alpha(2A/D)-AR transfectants expressed receptor protein (200-5000 fmol/mg). Similar results were obtained following transfection of DDT1MF-2 cells with the two receptor constructs. The role of the 3'-UTR of the alpha(2C)-AR in mRNA processing was determined by generating new constructs in which the 3'-UTR. was progressively truncated from 552 to 470, 182, 143, or 74 nt 3' to the stop codon. Truncation of the 3'-UTR resulted in the expression of receptor protein in the G418-resistant transfectants (nt 74, 100%; nt 143, 80%; nt 182, 50%). The level of mRNA in the transfectants expressing the receptor protein was not greater than that in nonexpressing clones, and the differences in protein expression did not reflect altered mRNA stability in the truncated construct. The alpha(2C)-AR mRNA with the longer 3'-UTR underwent translational initiation as it was found in the polysome fraction, indicating that the lack of receptor protein was due to impaired translational elongation or termination. These data suggest that translational efficiency is a hey mechanism for regulating alpha(2C)-AR expression and associated signaling events.Biophysical Structural Chemistr

Elongation factor Tu3 from the kirromycin-producer Streptomyces ramocissimus is resistant to three classes of EF-Tu-specific inhibitors

Microbial BiotechnologyBiophysical Structural Chemistr

Crystal structure of an empty capsid of turnip yellow mosaic virus

Biophysical Structural Chemistr

A new structure model for the packaging signal in the genome of group IIa Coronaviruses

Biophysical Structural ChemistrySupramolecular & Biomaterials Chemistr

Pseudoknots: a vital feature in viral RNA

The pseudoknot or "base-paired loop region" is a widespread structural motif in all kinds of viral RNAs. Detailed structures of hairpin-type pseudoknots, obtained by NMR, are now emerging, but it is still not clear which structural features are responsible for the different functions in processes like translation and replication. Especially noncoding regions are rich sources of pseudoknot structures, where they occur in domains like IRES elements and tRNA-like structures. But also its role in coding regions like in ribosomal -1 frameshifting and read-through is well established, although the precise mechanism of interference with the translational mechanism remains unknown. (C) 1997 Academic Press.Biophysical Structural Chemistr

Two histidines of the coat protein of turnip yellow mosaic virus at the capsid interior are crucial for viability

RNA-coat protein interactions in turnip yellow mosaic virus (TYMV) have been shown to involve low pK proton-donating groups. Two different types of interaction have been proposed. In the so-called type I interaction, protonated C-residues interact with acidic amino acids at low pH, thereby providing a rationale for the high C-content (38%) of the genomic RNA. The type 11 interaction involves charged histidines interacting with phosphates of the RNA backbone. Site-directed mutagenesis of the TYMV coat protein and subsequent in vivo analysis were performed to distinguish between these two types of RNA-protein interaction. The results reveal a prominent role for the histidines H68 and H180, since mutation to an alanine residue inhibits symptom development on secondary leaves, indicating that spreading of the virus in the plant is blocked. Viral RNA and coat protein synthesis are not altered, showing that these two histidines may play a role in the process of RNA encapsidation. Overexpression of the TYMV coat protein in Escherichia coli leads to the formation of bona fide capsids, showing that the two histidines are not critical in capsid assembly. Mutagenesis of the acidic amino acids D11, E135, and D143 to alanine apparently did not interfere with virus viability. The functional role of the histidines during the infection cycle is discussed in terms of the structure of the coat protein, both at the level of amino acid sequence conservation among the members of the Tymoviridae family and as the three-dimensional structure of the coat protein. (C) 2004 Wiley-Liss, Inc.Biophysical Structural Chemistr

A new principle of RNA folding based on pseudoknotting

Biophysical Structural Chemistr