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Interactions between 23S rRNA and tRNA in the ribosomal E site

Published online by Cambridge University Press:  07 February 2001

M. BOCCHETTA ,
L. XIONG ,
S. SHAH  and
A.S. MANKIN
M. BOCCHETTA
Affiliation:
Center for Pharmaceutical Biotechnology, University of Illinois, Chicago, Illinois 60607, USA Present address: Loyola University Medical Center, Department of Pathology, 2160 South First Avenue, Maywood, Illinois 60153, USA.
L. XIONG
Affiliation:
Center for Pharmaceutical Biotechnology, University of Illinois, Chicago, Illinois 60607, USA
S. SHAH
Affiliation:
Center for Pharmaceutical Biotechnology, University of Illinois, Chicago, Illinois 60607, USA
A.S. MANKIN
Affiliation:
Center for Pharmaceutical Biotechnology, University of Illinois, Chicago, Illinois 60607, USA
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Abstract

Interactions between tRNA or its analogs and 23S rRNA in the large ribosomal subunit were analyzed by RNA footprinting and by modification–interference selection. In the E site, tRNA protected bases G2112, A2392, and C2394 of 23S rRNA. Truncated tRNA, lacking the anticodon stem-loop, protected A2392 and C2394, but not G2112, and tRNA derivatives with a shortened 3′ end protected only G2112, but not A2392 or C2394. Modification interference revealed C2394 as the only accessible nucleotide in 23S rRNA whose modification interferes with binding of tRNA in the large ribosomal subunit E site. The results suggest a direct contact between A76 of tRNA A76 and C2394 of 23S rRNA. Protections at G2112 may reflect interaction of this 23S rRNA region with the tRNA central fold.

Keywords

E sitefootprinting modification interferenceribosometranslationtRNA
Type
Research Article
Information
RNA , Volume 7 , Issue 1 , January 2001 , pp. 54 - 63
Copyright
© 2001 RNA Society

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