Hostname: page-component-78c5997874-ndw9j Total loading time: 0 Render date: 2024-11-19T03:14:07.301Z Has data issue: false hasContentIssue false

A mechanism for stop codon recognition by the ribosome: A bioinformatic approach

Published online by Cambridge University Press:  11 January 2002

VALERY IVANOV
Affiliation:
V.A. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia Moscow Institute of Physics and Technology, 141700 Moscow Region, Dolgoprudny, Russia
ARTEMY BENIAMINOV
Affiliation:
V.A. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
ANDREI MIKHEYEV
Affiliation:
Moscow Institute of Physics and Technology, 141700 Moscow Region, Dolgoprudny, Russia
ELVIRA MINYAT
Affiliation:
V.A. Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, 119991 Moscow, Russia
Get access

Abstract

Protein synthesis in ribosomes requires two kinds of tRNAs: initiation and elongation. The former initiates the process (formylmethionine tRNA in prokaryotes and special methionine tRNA in eukaryotes). The latter participates in the synthesis proper, recognizing the sense codons. Synthesis is also assisted by special proteins: initiation, elongation, and termination factors. The termination factors are necessary to recognize stop codons (UAG, UGA, and UAA) and to release the complete protein chain from the elongation tRNA preceding a stop codon. No termination tRNA capable of recognizing stop codons by their anticodons is known. The termination factors are thought to do this. In the large ribosomal RNA, we found two sites that, like tRNAs, contain the anticodon hairpin but with triplets complementary to stop codons. One site is hairpin 69 from domain IV; the other site is hairpin 89, domain V. By analogy, we call them termination tRNAs: Ter-tRNA1 and Ter-tRNA2, respectively, even though they transport no amino acids, and suggest that they directly pair to stop codons. The termination factors only aid in this recognition, making it specific and reliable. A strong argument in favor of our hypothesis comes from vertebrate mitochondria. They are known to acquire two new stop codons, AGA and AGG. In the standard code, these are two out of six arginine codons. We revealed that the corresponding anticodons, UCU and CCU, have evolved in Ter-tRNA1 of these mitochondria.

Type
HYPOTHESIS
Information
RNA , Volume 7 , Issue 12 , December 2001 , pp. 1683 - 1692
Copyright
2001 RNA Society

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)