8C7A

Slow cation movements within tetramolecular G-quadruplex: vacant cation binding sites in addition to all syn G-quartet

Summary for 8C7A

• Entry DOI: 10.2210/pdb8c7a/pdb
• Descriptor: DNA (5'-D(*GP*GP*GP*GP*CP*C)-3') (1 entity in total)
• Functional Keywords: g-quadruplex, dna, c9orf72
• Biological source: Homo sapiens
• Total number of polymer chains: 4
• Total formula weight: 7400.92

Authors

Wang, B.,Zalar, M.,Plavec, J.,Sket, P. (deposition date: 2023-01-14, release date: 2023-11-22)

Primary citation

Zalar, M.,Wang, B.,Plavec, J.,Sket, P.
Insight into Tetramolecular DNA G-Quadruplexes Associated with ALS and FTLD: Cation Interactions and Formation of Higher-Ordered Structure.
Int J Mol Sci, 24:-, 2023

PubMed Abstract: The GC hexanucleotide repeat expansion in the gene is a major genetic cause of familial amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD), with the formation of G-quadruplexes directly linked to the development of these diseases. Cations play a crucial role in the formation and structure of G-quadruplexes. In this study, we investigated the impact of biologically relevant potassium ions on G-quadruplex structures and utilized N-labeled ammonium cations as a substitute for K ions to gain further insights into cation binding and exchange dynamics. Through nuclear magnetic resonance spectroscopy and molecular dynamics simulations, we demonstrate that the single d(GC) repeat, in the presence of NH ions, adopts a tetramolecular G-quadruplex with an all- quartet at the 5'-end. The movement of NH ions through the central channel of the G-quadruplex, as well as to the bulk solution, is governed by the vacant cation binding site, in addition to the all- quartet at the 5'-end. Furthermore, the addition of K ions to G-quadruplexes folded in the presence of NH ions induces stacking of G-quadruplexes via their 5'-end G-quartets, leading to the formation of stable higher-ordered species.

PubMed: 37686239
DOI: 10.3390/ijms241713437

Experimental method

SOLUTION NMR