scholarly journals Dual Binding of an Antibody and a Small Molecule Increases the Stability of TERRA G-Quadruplex

2014 ◽  
Vol 54 (3) ◽  
pp. 910-913 ◽  
Author(s):  
Philip M. Yangyuoru ◽  
Marco Di Antonio ◽  
Chiran Ghimire ◽  
Giulia Biffi ◽  
Shankar Balasubramanian ◽  
...  
Keyword(s):  
Small Molecule ◽  
G Quadruplex ◽  
The Stability

scholarly journals Dual Binding of an Antibody and a Small Molecule Increases the Stability of TERRA G-Quadruplex

2014 ◽  
Vol 127 (3) ◽  
pp. 924-927 ◽  
Author(s):  
Philip M. Yangyuoru ◽  
Marco Di Antonio ◽  
Chiran Ghimire ◽  
Giulia Biffi ◽  
Shankar Balasubramanian ◽  
...  
Keyword(s):  
Small Molecule ◽  
G Quadruplex ◽  
The Stability

An in Silico Investigation of Binding Modes and Pathway of APTO-253 on c-KIT G-Quadruplex DNA

2020 ◽  
Author(s):  
Saikat Pal ◽  
Sandip Paul
Keyword(s):  
Cancer Therapy ◽  
In Silico ◽  
Binding Modes ◽  
Quadruplex Dna ◽  
G Quadruplex ◽  
The Stability

The stability of c-KIT G-quadruplex DNA by ligands has been a significant concern in the growing field of cancer therapy. Thus, it is very important to understand the mechanism behind...

scholarly journals Telomeric G-Quadruplexes: From Human to Tetrahymena Repeats

2017 ◽  
Vol 2017 ◽  
pp. 1-14 ◽  
Author(s):  
Erika Demkovičová ◽  
Ľuboš Bauer ◽  
Petra Krafčíková ◽  
Katarína Tlučková ◽  
Petra Tóthova ◽  
...  
Keyword(s):  
Life Cycle ◽  
Base Substitution ◽  
Telomeric Dna ◽  
Purine Base ◽  
Telomeric Sequences ◽  
G Quadruplex ◽  
The Stability ◽  
Scientific Value ◽  
The Relationship ◽  
Adenine Base

The human telomeric and protozoal telomeric sequences differ only in one purine base in their repeats; TTAGGG in telomeric sequences; and TTGGGG in protozoal sequences. In this study, the relationship between G-quadruplexes formed from these repeats and their derivatives is analyzed and compared. The human telomeric DNA sequence G3(T2AG3)3 and related sequences in which each adenine base has been systematically replaced by a guanine were investigated; the result is Tetrahymena repeats. The substitution does not affect the formation of G-quadruplexes but may cause differences in topology. The results also show that the stability of the substituted derivatives increased in sequences with greater number of substitutions. In addition, most of the sequences containing imperfections in repeats which were analyzed in this study also occur in human and Tetrahymena genomes. Generally, the presence of G-quadruplex structures in any organism is a source of limitations during the life cycle. Therefore, a fuller understanding of the influence of base substitution on the structural variability of G-quadruplexes would be of considerable scientific value.

scholarly journals The effect of hairpin loop on the structure and gene expression activity of the long-loop G-quadruplex

2021 ◽  
Author(s):  
Subramaniyam Ravichandran ◽  
Maria Razzaq ◽  
Nazia Parveen ◽  
Ambarnil Ghosh ◽  
Kyeong Kyu Kim
Keyword(s):  
Gene Expression ◽  
Rna Structure ◽  
Biological Significance ◽  
Cellular Functions ◽  
Hairpin Loops ◽  
G Quadruplex ◽  
Reporter Assays ◽  
Expression Activity ◽  
The Stability ◽  
And Function

Abstract G-quadruplex (G4), a four-stranded DNA or RNA structure containing stacks of guanine tetrads, plays regulatory roles in many cellular functions. So far, conventional G4s containing loops of 1–7 nucleotides have been widely studied. Increasing experimental evidence suggests that unconventional G4s, such as G4s containing long loops (long-loop G4s), play a regulatory role in the genome by forming a stable structure. Other secondary structures such as hairpins in the loop might thus contribute to the stability of long-loop G4s. Therefore, investigation of the effect of the hairpin-loops on the structure and function of G4s is required. In this study, we performed a systematic biochemical investigation of model G4s containing long loops with various sizes and structures. We found that the long-loop G4s are less stable than conventional G4s, but their stability increased when the loop forms a hairpin (hairpin-G4). We also verified the biological significance of hairpin-G4s by showing that hairpin-G4s present in the genome also form stable G4s and regulate gene expression as confirmed by in cellulo reporter assays. This study contributes to expanding the scope and diversity of G4s, thus facilitating future studies on the role of G4s in the human genome.

scholarly journals Kinetic Target‐Guided Synthesis of Small‐Molecule G‐Quadruplex Stabilizers

ChemistryOpen ◽  
2020 ◽  
Vol 9 (12) ◽  
pp. 1236-1250
Author(s):  
Alice Pomeislová ◽  
Lukáš Vrzal ◽  
Jaroslav Kozák ◽  
Juraj Dobiaš ◽  
Martin Hubálek ◽  
...  
Keyword(s):  
Small Molecule ◽  
G Quadruplex

scholarly journals Molecular Recognition of the Hybrid-Type G-Quadruplexes in Human Telomeres

Molecules ◽  
2019 ◽  
Vol 24 (8) ◽  
pp. 1578 ◽  
Author(s):  
Guanhui Wu ◽  
Luying Chen ◽  
Wenting Liu ◽  
Danzhou Yang
Keyword(s):  
Small Molecule ◽  
Solution Structure ◽  
Structural Information ◽  
Rational Drug Design ◽  
Hybrid Type ◽  
G4 Dna ◽  
Rational Drug ◽  
G Quadruplex ◽  
Molecule Recognition ◽  
Dna Secondary Structures

G-quadruplex (G4) DNA secondary structures formed in human telomeres have been shown to inhibit cancer-specific telomerase and alternative lengthening of telomere (ALT) pathways. Thus, human telomeric G-quadruplexes are considered attractive targets for anticancer drugs. Human telomeric G-quadruplexes are structurally polymorphic and predominantly form two hybrid-type G-quadruplexes, namely hybrid-1 and hybrid-2, under physiologically relevant solution conditions. To date, only a handful solution structures are available for drug complexes of human telomeric G-quadruplexes. In this review, we will describe two recent solution structural studies from our labs. We use NMR spectroscopy to elucidate the solution structure of a 1:1 complex between a small molecule epiberberine and the hybrid-2 telomeric G-quadruplex, and the structures of 1:1 and 4:2 complexes between a small molecule Pt-tripod and the hybrid-1 telomeric G-quadruplex. Structural information of small molecule complexes can provide important information for understanding small molecule recognition of human telomeric G-quadruplexes and for structure-based rational drug design targeting human telomeric G-quadruplexes.

Abstract 3089: A novel G-quadruplex formed in the PDGFR-β promoter that is selectively targeted by a small molecule to repress transcription

2016 ◽  
Author(s):  
Buket Onel ◽  
Prashansa Agrawal ◽  
Megan Carver ◽  
Robert Brown ◽  
Laurence Hurley ◽  
...  
Keyword(s):  
Small Molecule ◽  
G Quadruplex

Abstract 322: Selective inhibition of MYC expression by a small molecule G-quadruplex stabilizer

2016 ◽  
Author(s):  
Elena C. Leon ◽  
John K. Simmons ◽  
David Calabrese ◽  
Wendy DuBois ◽  
Kenneth Felsenstein ◽  
...  
Keyword(s):  
Small Molecule ◽  
Selective Inhibition ◽  
G Quadruplex
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