NMR study of a heterochiral DNA hairpin:impact of L-enantiomery in the loop. - CNRS - Centre national de la recherche scientifique Accéder directement au contenu
Article Dans Une Revue Journal of Biomolecular Structure and Dynamics Année : 2001

NMR study of a heterochiral DNA hairpin:impact of L-enantiomery in the loop.

Résumé

We carried out a structural study of the DNA heterochiral strand d (AGCTTATCAT(L)CGATAAGCT), -AT(L)C-, where T(L) (L thymine ) replaces T (natural D-thymine). -AT(L)C- is a structural analog of -ATC- that belongs to a strong topoisomerase II DNA cleavage site and which has been shown to resolve into a hairpin structure with a stem formed by eight Waston-Crick base-pairs and a single residue loop closed by an A.C sheared base-pair. Although - AT(L)C-, like its parent -ATC-, folds into a hairpin structure at low and high DNA concentrations it displays a lower stability (Tm of 56 degrees C versus 58.5 degrees C). Several NMR features in -AT(L)C- account for the disruption of the A.C pairing in the loop and a weakening of the C.G base-pair stability at the stem-loop junction. For instance, the exchange of the loop imino protons with solvent is accelerated compared with the natural oligonucleotide -ATC-. The higher flexibility of the heterochiral loop is confirmed by the results of NMR restrained molecular dynamics. In the calculated final structures of -AT(L)C-, the T10(L) residue moves the A9 and C11 residues away, thus preventing the loop closure through a C.A sheared base-pair and the achievement of a good base-base or sugar-base stacking. Actually, most of the stabilizing interactions present in -ATC- are lost in the heterochiral - AT(L)C- explaining its weaker stability.
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Dates et versions

hal-00284924 , version 1 (04-06-2008)

Identifiants

  • HAL Id : hal-00284924 , version 1
  • PUBMED : 11790144

Citer

Chahrazade El Amri, Olivier Mauffret, F. Santamaria, Georges Tevanian, B. Rayner, et al.. NMR study of a heterochiral DNA hairpin:impact of L-enantiomery in the loop.. Journal of Biomolecular Structure and Dynamics, 2001, 19 (3), pp.459-70. ⟨hal-00284924⟩
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