A new NMR solution structure of the SL1 HIV-1Lai loop-loop dimer

Fabien Kieken, Françoise Paquet, Fabienne Brulé, Jacques Paoletti, Gérard Lancelot

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38 Scopus citations

Abstract

Dimerization of genomic RNA is directly related with the event of encapsidation and maturation of the virion. The initiating sequence of the dimerization is a short autocomplementary region in the hairpin loop SL1. We describe here a new solution structure of the RNA dimerization initiation site (DIS) of HIV-1Lai. NMR pulsed field-gradient spin-echo techniques and multidimensional heteronuclear NMR spectroscopy indicate that this structure is formed by two hairpins linked by six Watson-Crick GC base pairs. Hinges between the stems and the loops are stabilized by intra and intermolecular interactions involving the A8, A9 and A16 adenines. The coaxial alignment of the three A-type helices present in the structure is supported by previous crystallography analysis but the A8 and A9 adenines are found in a bulged in position. These data suggest the existence of an equilibrium between bulged in and bulged out conformations in solution.

Original languageEnglish (US)
Pages (from-to)343-352
Number of pages10
JournalNucleic Acids Research
Volume34
Issue number1
DOIs
StatePublished - Jan 1 2006

ASJC Scopus subject areas

  • Genetics

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    Kieken, F., Paquet, F., Brulé, F., Paoletti, J., & Lancelot, G. (2006). A new NMR solution structure of the SL1 HIV-1Lai loop-loop dimer. Nucleic Acids Research, 34(1), 343-352. https://doi.org/10.1093/nar/gkj427