Crystal structure of double helical hexitol nucleic acids.Declercq, R., Van Aerschot, A., Read, R.J., Herdewijn, P., Van Meervelt, L.
(2002) J Am Chem Soc 124: 928-933
- PubMed: 11829600
- DOI: 10.1021/ja016570w
- Primary Citation of Related Structures:
- PubMed Abstract:
- 1',5'-Anhydrohexitol Nucleic Acids, a New Promising Antisense Construct
Van Aerschot, A., Verheggen, I., Hendrix, C., Herdewijn, P.
(1995) Angew Chem Int Ed Engl 34: 1338
- 1',5'-Anhydro-2',3'-Dideoxy-2'-(Guanin-9-Yl)-D-Arabino Hexitol
Declercq, R., Herdewijn, P., Van Meervelt, L.
(1995) Acta Crystallogr C 52: 1213
- Molecular Dynamics Simulation to Investigate Differences in Groove Hydration of HNA/RNA Hybrids as Compared to HNA/DNA Complexes
De Winter, H., Lescrinier, E., Van Aerschot, A., Herdewijn, P
(1998) J Am Chem Soc 120: 5381
- Oligonucleotides with 1',5'-Anhydrohexitol Nucleoside Building Blocks: Crystallisation and Preliminary X-Ray Studies of h(GTGTACAC)
Declercq, R., Van Aerschot, A., Herdewijn, P., Van Meervelt, L.
(1999) Acta Crystallogr D Biol Crystallogr 55: 279
A huge variety of chemically modified oligonucleotide derivatives has been synthesized for possible antisense applications. One such derivative, hexitol nucleic acid (HNA), is a DNA analogue containing the standard nucleoside bases, but with a phosph ...
A huge variety of chemically modified oligonucleotide derivatives has been synthesized for possible antisense applications. One such derivative, hexitol nucleic acid (HNA), is a DNA analogue containing the standard nucleoside bases, but with a phosphorylated 1',5'-anhydrohexitol backbone. Hexitol nucleic acids are some of the strongest hybridizing antisense compounds presently known, but HNA duplexes are even more stable. We present here the first high-resolution structure of a double helical nucleic acid with all sugars being hexitols. Although designed to have a restricted conformational flexibility, the hexitol oligomer h(GTGTACAC) is able to crystallize in two different double helical conformations. Both structures display a high x-displacement, normal Watson-Crick base pairing, similar base stacking patterns, and a very deep major groove together with a minor groove with increased hydrophobicity. One of the conformations displays a major groove which is wide enough to accommodate a second HNA double helix resulting in the formation of a double helix of HNA double helices. Both structures show most similarities with the A-type helical structure, the anhydrohexitol chair conformation thereby acting as a good mimic for the furanose C3'-endo conformation observed in RNA. As compared to the quasi-linear structure of homo-DNA, the axial position of the base in HNA allows efficient base stacking and hence double helix formation.
Biomolecular Architecture, Department of Chemistry, Katholieke Universiteit Leuven, Celestijnenlaan 200F, B-3001 Leuven (Heverlee), Belgium.