GNA Trinucleotide Loop Sequences Producing Extraordinarily Stable DNA Minihairpins
- 1 April 1997
- journal article
- research article
- Published by American Chemical Society (ACS) in Biochemistry
- Vol. 36 (16) , 4761-4767
- https://doi.org/10.1021/bi961738p
Abstract
D(GCGAAAGC) and d(GCGAAGC) fragments form extraordinarily stable DNA minihairpins containing only two G-C base pairs and a GAAA or GAA loop, respectively, with a Tm of 76 °C. These sequences are frequently found in some important regions such as replication origins and promoter regions for transcription. We examined all 64 possible DNA fragments, d(GCNNNGC), in which the triloop region of the d(GCGAAGC) minihairpin was randomized and found that only four fragments, d(GCGNAGC) (N = A, G, C, or T), formed extraordinarily stable minihairpins as shown by their gel mobility and resistance to a single-stranded DNA-specific exonuclease. Structural and thermodynamic analyses suggest that the extraordinary stability is caused by a unique structural property of the trinucleotide sequences corresponding to the GNA loop.Keywords
This publication has 5 references indexed in Scilit:
- Exceptionally Stable Nucleic Acid HairpinsAnnual Review of Biophysics, 1995
- Human chromosomal centromere (AATGG)n sequence forms stable structures with unusual base pairsFEBS Letters, 1994
- Stabilization of mRNA in an Escherichia coli cell‐free translation systemFEBS Letters, 1993
- On loopfolding in nucleic acid hairpin-type structures29Journal of Biomolecular Structure and Dynamics, 1986
- NMR with Proteins and Nucleic AcidsEurophysics News, 1986