Stacking of G-quadruplexes: NMR structure of a G-rich oligonucleotide with potential anti-HIV and anticancer activity†

Abstract

G-rich oligonucleotides T30695 (or T30923), with the sequence of (GGGT)4, and T40214, with the sequence of (GGGC)4, have been reported to exhibit anti-HIV and anticancer activity. Here we report on the structure of a dimeric G-quadruplex adopted by a derivative of these sequences in K+ solution. It comprises two identical propeller-type parallel-stranded G-quadruplex subunits each containing three G-tetrad layers that are stacked via the 5′-5′ interface. We demonstrated control over the stacking of the two monomeric subunits by sequence modifications. Our analysis of possible structures at the stacking interface provides a general principle for stacking of G-quadruplexes, which could have implications for the assembly and recognition of higher-order G-quadruplex structures.

A Label-free, Highly Sensitive and Selective Detection of Hemin Based on the Competition between Hemin and Protoporphyrin IX Binding to G-Quadruplexes

“…13,14 G-rich single stranded DNA can form different types of G-quadruplex conformations influenced by the sequences, coexisting metal ions, the concentrations of metal ions, and so on. [15][16][17][18] These influencing factors endow the G-quadruplex with functions as biological sensing elements. [19][20][21] The G-quadruplex has also attracted intense research attention since it can bind a hemin forming hemin-G-quadruplex complex that exhibits the peroxidase-like activity.…”

Structure and target interaction of a G-quadruplex RNA-aptamer

“…A dimer structure of G-quadruplex (PDB: 2LE6 62 ) was docked on the structure of the hIL-6R protein (PDB: 1N26 63 ) with the ATTRACT engine. 64 Both partners, protein and quadruplex, were first considered as rigid and converted into coarse-grain representation.…”

Conformational polymorphysm of G-rich fragments of DNA Alu-repeats. II. the putative role of G-quadruplex structures in genomic rearrangements

“…Образование стопок параллельных квадруплексов, стабилизированных стекинг-взаимодействиями внешних G-квартетов, отмечено ранее в нескольких работах [15,16]. Наиболее подробно изучено формирование димеров олигонуклеотида G3 (5¢-GGGTGGGTGGGTGGG) [15].…”

“…Наиболее подробно изучено формирование димеров олигонуклеотида G3 (5¢-GGGTGGGTGGGTGGG) [15]. Мы предположили, что компактные двухквартетные параллельные PQS4 также склонны к самосборке в стопки (схематическое изображение стопок GQ представлено на рис.…”