An NMR study of the conformation and thermodynamics of the circular dumbbell d [formula: see text] Slow exchange between two- and four-membered hairpin loops

J H Ippel; V Lanzotti; A Galeone; L Mayol; J E van den Boogaart; J A Pikkemaat; C Altona

doi:10.1080/07391102.1992.10507961

An NMR study of the conformation and thermodynamics of the circular dumbbell d [formula: see text] Slow exchange between two- and four-membered hairpin loops

J Biomol Struct Dyn. 1992 Apr;9(5):821-36. doi: 10.1080/07391102.1992.10507961.

Authors

J H Ippel¹, V Lanzotti, A Galeone, L Mayol, J E van den Boogaart, J A Pikkemaat, C Altona

Affiliation

¹ Department of Organic Chemistry, Leiden University, The Netherlands.

PMID: 1326279
DOI: 10.1080/07391102.1992.10507961

Abstract

The circular DNA decamer 5'-d [formula: see text] 3' is studied in solution by means of NMR spectroscopy. At low temperature the molecule adopts a dumbbell structure with three Watson-Crick C-G base pairs and two two-residue loops in opposite parts of the molecule. On raising the temperature another conformer appears, in which the closing C-G base pair in the 5'-GTTC-3' loop is disrupted, whereas the opposite 5'-CTTG-3' loop remains stable. The two conformers are in slow equilibrium over a limited temperature range.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Base Composition
Base Sequence
DNA, Circular / chemistry*
Magnetic Resonance Spectroscopy
Molecular Sequence Data
Nucleic Acid Conformation*
Oligodeoxyribonucleotides / chemistry*
Protons
Thermodynamics

Substances

DNA, Circular
Oligodeoxyribonucleotides
Protons