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Identification of 2′-hydroxyl groups required for interaction of a tRNA anticodon stem-loop region with the ribosome

Published online by Cambridge University Press:  01 January 1997

UWE VON AHSEN
Affiliation:
Institute of Microbiology and Genetics, University of Vienna, Dr. Bohrg. 9, 1030 Vienna, Austria
RACHEL GREEN
Affiliation:
Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California, Santa Cruz, California 95064, USA
RENÉE SCHROEDER
Affiliation:
Institute of Microbiology and Genetics, University of Vienna, Dr. Bohrg. 9, 1030 Vienna, Austria
HARRY F. NOLLER
Affiliation:
Center for Molecular Biology of RNA, Sinsheimer Laboratories, University of California, Santa Cruz, California 95064, USA
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Abstract

Synthetic RNA stem loops corresponding to positions 28–42 in the anticodon region of tRNAPhe bind efficiently in an mRNA-dependent manner to ribosomes, whereas those made from DNA do not. In order to identify the positions where ribose is required, the anticodon stem-loop region of tRNAPhe (Escherichia coli) was synthesized chemically using a mixture of 2′-hydroxyl- and 2′-deoxynucleotide phosphoramidites. Oligonucleotides whose ribose composition allowed binding were retained selectively on nitrocellulose filters via binding to 30S ribosomal subunits. The binding-competent oligonucleotides were submitted to partial alkaline hydrolysis to identify the positions that were enriched for ribose. Quantification revealed a strong preference for a 2′-hydroxyl group at position U33. This was shown directly by the 50-fold lower binding affinity of a stem loop containing a single deoxyribose at position U33. Similarly, defective binding of the corresponding U33-2′-O-methyl-substituted stem-loop RNA suggests that absence of the 2′-hydroxyl group, rather than an altered sugar pucker, is responsible. Stem-loop oligoribonucleotides from different tRNAs with U33-deoxy substitutions showed similar, although quantitatively different effects, suggesting that intramolecular rather than tRNA-ribosome interactions are affected. Because the 2′-hydroxyl group of U33 was shown to be a major determinant of the U-turn of the anticodon loop in the crystal structure of tRNAPhe in yeast, our finding might indicate that the U-turn conformation in the anticodon loop is required and/or maintained when the tRNA is bound to the ribosomal P site.

Type
Research Article
Information
RNA , Volume 3 , Issue 1 , January 1997 , pp. 49 - 56
Copyright
© 1997 RNA Society

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