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Nucleic Acids Research, 1989, Vol. 17, No. 8 2973-2985
© 1989

MOLECULAR BIOLOGY

An additional ribosome-binding site on mRNA of highly expressed genes and a bifunctional site on the colicin fragment of 16S rRNA from Escherichia coli: important determinants of the efficiency of translation-initiation

T.A. Thanaraj and M.W. Pandit*

Centre for Cellular and Molecular Biology Hyderabad 500 007, India

*To whom correspondence should be addressed

Received February 1, 1989. Revised March 23, 1989. Accepted March 23, 1989.

For various genes of E.coli, three regions (–55 to –1; –35 to –1; –21 to –1)5' to AUG codon on mRNA were searched for sites of interaction with colicin fragment of 16S rRNA. The detailed sequence comparison points out that apart from Shine-Dalgarno base pairing, an additional ribosome binding site, a subsequence of 5'-UGAUCC-3' invariably exists in mRNA for highly expressed genes. Poorly expressed genes appear to be controlled by only Shine-Dalgarno base pairing. The analysis indicates that in the initiator region, the –55 to –1 region contains the signal which decides the efficiency of the translation-initiation. The site on 16S rRNA, 5'-GGAUCA-3' at position 1529, that can base pair to the above site, has a recognition site on 23S rRNA at position 2390. In the light of the conserved nature and accessibility of these sites, it is proposed that the site on 16S rRNA plays a bifunctional role-initially it binds to mRNA from highly expressed genes to form a stable 30S initiation complex, and upon association with 505 subunit it exchanges base pairing with 23S rRNA, thus leaving the site on mRNA free.


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