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. 2014 Oct 20;42(20):12352–12366. doi: 10.1093/nar/gku999

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© The Author(s) 2014. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 4. — (a) Genomic structure of the HIV-1 provirus and (b) LOGO representation of the G-rich region for the HIV-1 promoter generated using the weblogo software (183) and based on an alignment of 1684 HIV-1 sequences provided by the HIV-1 database (www.hiv.lanl.gov). (c) The U3 region of the LTR from the HXB2_LAI;NC_001802 HIV-1 representative strain. (d, e and g) Topologies of the LTR G4s determined using Clerocidin and DMS-mediated footprinting assays (116) for the (d) 1–32 nt segment, (e) 12–44 nt segment and (f) 26–44 nt segment. (g) Topology of the 12–37 nt segments determined using nuclear magnetic resonance (NMR) (117).