7ALU

NMR structure of a DNA G-quadruplex containing two SP1 binding sites from HIV-1 promoter

Summary for 7ALU

• Entry DOI: 10.2210/pdb7alu/pdb
• NMR Information: BMRB: 34565
• Descriptor: DNA (5'-D(*AP*GP*GP*GP*AP*GP*GP*TP*GP*TP*GP*GP*CP*CP*TP*GP*GP*GP*CP*GP*GP*G)-3'), POTASSIUM ION (2 entities in total)
• Functional Keywords: virus, hiv-1, g-quadruplex, sp1, dna
• Biological source: Human immunodeficiency virus 1
• Total number of polymer chains: 1
• Total formula weight: 7048.66

Authors

De Rache, A.,Marquevielle, J.,Amrane, S. (deposition date: 2020-10-07, release date: 2022-06-01, Last modification date: 2023-12-13)

Primary citation

De Rache, A.,Marquevielle, J.,Bouaziz, S.,Vialet, B.,Andreola, M.L.,Mergny, J.L.,Amrane, S.
Structure of a DNA G-quadruplex that modulates SP1 binding sites architecture in HIV-1 promoter.
J.Mol.Biol., :168359-168359, 2023

PubMed Abstract: Nucleic acid sequences containing guanine tracts are able to form non-canonical DNA or RNA structures known as G-quadruplexes (or G4s). These structures, based on the stacking of G-tetrads, are involved in various biological processes such as gene expression regulation. Here, we investigated a G4 forming sequence, HIVpro2, derived from the HIV-1 promoter. This motif is located 60 nucleotides upstream of the proviral Transcription Starting Site (TSS) and overlaps with two SP1 transcription factor binding sites. Using NMR spectroscopy, we determined that HIVpro2 forms a hybrid type G4 structure with a core that is interrupted by a single nucleotide bulge. An additional reverse-Hoogsteen AT base pair is stacked on top of the tetrad. SP1 transcription factor is known to regulate transcription activity of many genes through the recognition of Guanine-rich duplex motifs. Here, the formation of HIVpro2 G4 may modulate SP1 binding sites architecture by competing with the formation of the canonical duplex structure. Such DNA structural switch potentially participates to the regulation of viral transcription and may also interfere with HIV-1 reactivation or viral latency.

PubMed: 37952768
DOI: 10.1016/j.jmb.2023.168359

Experimental method

SOLUTION NMR