Effects of 3' dangling end stacking on the stability of GGCC and CCGG double helices

Thermodynamic properties for helix formation of two core molecules, GGCC and CCGG, and pentanucleotides containing either core plus a 3' dangling nucleotide were measured spectrophotometrically. Thermodynamic parameters obtained by using a two-state model demonstrate the stabilizing effect of a...

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Bibliographic Details
Published in:Biochemistry (Easton) 1983, Vol.22 (26), p.6198-6206
Main Authors: FREIER, S. M, BURGER, B. J, ALKEMA, D, NEILSON, T, TURNER, D. H
Format: Article
Language:English
Subjects:
Biological and medical sciences
Fundamental and applied biological sciences. Psychology
Molecular biophysics
Structure in molecular biology
Tridimensional structure
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Summary:Thermodynamic properties for helix formation of two core molecules, GGCC and CCGG, and pentanucleotides containing either core plus a 3' dangling nucleotide were measured spectrophotometrically. Thermodynamic parameters obtained by using a two-state model demonstrate the stabilizing effect of a 3' dangling end is enthalpic. The results indicate stacking is an important contributor to nucleic acid stability. Sedimentation equilibrium experiments at 3 degree C on GGCCGp in 1 M Na super(+) and GGCCAp in 0.01 M Na super(+) indicate no aggregation of pentanucleotide helices at strand concentrations as high as 2 mM.
ISSN:0006-2960
1520-4995
DOI:10.1021/bi00295a025