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Science 9 June 1995:
Vol. 268. no. 5216, pp. 1448 - 1454
DOI: 10.1126/science.7539549
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Articles

Science, Vol 268, Issue 5216, 1448-1454
Copyright © 1995 by American Association for the Advancement of Science

articles

Bent helix formation between RNA hairpins with complementary loops

JP Marino, RS Gregorian Jr, G Csankovszki, and DM Crothers

Department of Chemistry, Yale University, New Haven, CT 06511, USA.

The initial interaction between the ColE1 plasmid specific transcripts RNA I and RNA II, which function as antisense regulators of plasmid replication, comprises a transient complex between complementary loops found within the RNA secondary structures. Multidimensional heteronuclear magnetic resonance spectroscopy was used to characterize complexes formed between model RNA hairpins having seven nucleotide complementary loops. Seven base pairs are formed in the loop-loop helix, with continuous helical stacking of the loop residues on the 3' side of their helical stems. A sharp bend in the loop-loop helix, documented by gel electrophoresis, narrows the major groove and allows bridging of the phosphodiester backbones across the major groove in order to close the hairpin loops at their 5'-ends. The bend is further enhanced by the binding of Rom, a ColE1 encoded protein that regulates replication.


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