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A R Mount, C P Mountford, S A Evans, T J Su, A H Buck, P Dickinson, C J Campbell, L M Keane, J G Terry, J S Beattie, A J Walton, P Ghazal, and J Crain (2006)

The stability and characteristics of a DNA holliday junction switch

Biophysical Chem. Control 124:214–221.

A Holliday junction (HJ) consists of four DNA double helices, with a branch point discontinuity at the intersection of the component strands. At low ionic strength, the HJ adopts an open conformation, with four widely spaced arms, primarily due to strong electrostatic repulsion between the phosphate groups on the backbones. At high ionic strength, screening of this repulsion induces a switch to a more compact (closed) junction conformation. Fluorescent labelling with dyes placed on the HJ arms allows this conformational switch to be detected optically using fluorescence resonance energy transfer (FRET),