5ZEV

Solution structure of G-quadruplex formed in vegfr-2 proximal promoter sequence

Summary for 5ZEV

• Entry DOI: 10.2210/pdb5zev/pdb
• NMR Information: BMRB: 36168
• Descriptor: DNA (5'-D(*GP*GP*GP*TP*AP*CP*CP*CP*GP*GP*GP*TP*GP*AP*GP*GP*TP*GP*CP*GP*GP*GP*GP*T)-3') (1 entity in total)
• Functional Keywords: g-quadruplex vegfr-2 dna, dna
• Biological source: synthetic construct
• Total number of polymer chains: 1
• Total formula weight: 7563.84

Authors

Liu, Y.,Lan, W.X. (deposition date: 2018-02-28, release date: 2018-04-18, Last modification date: 2024-05-15)

Primary citation

Liu, Y.,Lan, W.,Wang, C.,Cao, C.
A putative G-quadruplex structure in the proximal promoter ofVEGFR-2has implications for drug design to inhibit tumor angiogenesis.
J. Biol. Chem., 293:8947-8955, 2018

PubMed Abstract: Tumor angiogenesis is mainly regulated by vascular endothelial growth factor (VEGF) produced by cancer cells. It is active on the endothelium via VEGF receptor 2 (VEGFR-2). G-quadruplexes are DNA secondary structures formed by guanine-rich sequences, for example, within gene promoters where they may contribute to transcriptional activity. The proximal promoter of contains a G-quadruplex, which has been suggested to interact with small molecules that inhibit expression and thereby tumor angiogenesis. However, its structure is not known. Here, we determined its NMR solution structure, which is composed of three stacked G-tetrads containing three guanines. The first guanine (G) is positioned within the central G-tetrad. We also observed that a noncanonical, V-shaped loop spans three G-tetrad planes, including no bridging nucleotides. A long and diagonal loop, which includes six nucleotides, connects reversal double chains. With a melting temperature of 54.51 °C, the scaffold of this quadruplex is stabilized by one G-tetrad plane stacking with one nonstandard bp, G-C, whose bases interact with each other through only one hydrogen bond. In summary, the NMR solution structure of the G-quadruplex in the proximal promoter region of the gene reported here has uncovered its key features as a potential anticancer drug target.

PubMed: 29666187
DOI: 10.1074/jbc.RA118.002666

Experimental method

SOLUTION NMR