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. 2011 Mar 11;39(12):5276–5283. doi: 10.1093/nar/gkr096

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© The Author(s) 2011. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Sequences of the DNA fragments investigated in this study. All the sequences contain a low-stability AT-rich region (yellow highlighted) able to nucleate temporal intermittent partial opening (DNA bubble). Guanines along the 5′-3′ strand are used as molecular probes. S1, S2, S3 are artificial sequences containing a large TATA box motif (modified in sequence S2) and S4 and S5 are natural sequences from DNA promoter regions of genes in E. coli 536 (bases −28 to −5 in gene ECP-0995) and Y. pestis CO92 (bases −42 to −20 in gene YPO2592, respectively. All fragments have been completed by GC-rich terminal domains (marked as white boxes) to stabilize these short DNA helices.