Comparative study of translation termination sites and release factors (RF1 and RF2) in procaryotes

Y. Ozawa, R. Saito, T. Washio, Masaru Tomita

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

Translation termination is catalyzed by release factors that recognize stop codons. However, previous works have shown that in some bacteria, the termination process also involves bases around stop codons. Recently, Ito et al, analyzed release factors and identified the amino acids therein that recognize stop codons. However, the amino acids that recognize bases around stop codons remain unclear. To identify the candidate amino acids that recognize the bases around stop codons, we aligned the protein sequences of the release factors of various bacteria and searched for amino acids that were conserved specifically in the sequence of bacteria that seemed to regulate translation termination by bases around stop codons. As a result, species having several highly conserved residues in RF1 and RF2 showed positive correlations between their codon usage bias and conservation of the bases around the stop codons. In addition, some of the residues were located very close to the SPF motif, which deciphers stop codons. These results suggest that these conserved amino acids enable the release factors to recognize the bases around the stop codons.

Original languageEnglish
Pages (from-to)665-672
Number of pages8
JournalJournal of Molecular Evolution
Volume56
Issue number6
DOIs
Publication statusPublished - 2003 Jun 1

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Keywords

  • Bacterial genomes
  • CAI
  • Consensus
  • Release factors
  • Stop codons
  • Translation termination

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Molecular Biology
  • Genetics

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