Molecular Crowding and Hydration Regulating of G-Quadruplex Formation

2012 ◽  
pp. 87-110 ◽  
Author(s):  
Daisuke Miyoshi ◽  
Takeshi Fujimoto ◽  
Naoki Sugimoto
Keyword(s):  
Molecular Crowding ◽  
G Quadruplex ◽  
Quadruplex Formation

scholarly journals The Effects of Molecular Crowding on the Structure and Stability of G-Quadruplexes with an Abasic Site

2011 ◽  
Vol 2011 ◽  
pp. 1-9 ◽  
Author(s):  
Takeshi Fujimoto ◽  
Shu-ichi Nakano ◽  
Daisuke Miyoshi ◽  
Naoki Sugimoto
Keyword(s):  
Site Effects ◽  
Enthalpy Change ◽  
Molecular Crowding ◽  
Abasic Site ◽  
Structure And Stability ◽  
Quadruplex Structure ◽  
Abasic Sites ◽  
Crowding Effects ◽  
G Quadruplex ◽  
Quadruplex Formation

Both cellular environmental factors and chemical modifications critically affect the properties of nucleic acids. However, the structure and stability of DNA containing abasic sites under cell-mimicking molecular crowding conditions remain unclear. Here, we investigated the molecular crowding effects on the structure and stability of the G-quadruplexes including a single abasic site. Structural analysis by circular dichroism showed that molecular crowding by PEG200 did not affect the topology of the G-quadruplex structure with or without an abasic site. Thermodynamic analysis further demonstrated that the degree of stabilization of the G-quadruplex by molecular crowding decreased with substitution of an abasic site for a single guanine. Notably, we found that the molecular crowding effects on the enthalpy change for G-quadruplex formation had a linear relationship with the abasic site effects depending on its position. These results are useful for predicting the structure and stability of G-quadruplexes with abasic sites in the cell-mimicking conditions.

Hsa‐miR‐1587 G‐quadruplex formation and dimerization induced by NH4+, molecular crowding environment and jatrorrhizine derivatives

Talanta ◽  
2018 ◽  
Vol 179 ◽  
pp. 337-343 ◽  
Author(s):  
Wei Tan ◽  
Long Yi ◽  
Zhentao Zhu ◽  
Lulu Zhang ◽  
Jiang Zhou ◽  
...  
Keyword(s):  
Molecular Crowding ◽  
G Quadruplex ◽  
Quadruplex Formation

Molecular Crowding Induces Telomere G-Quadruplex Formation under Salt-Deficient Conditions and Enhances its Competition with Duplex Formation

2006 ◽  
Vol 118 (10) ◽  
pp. 1659-1662 ◽  
Author(s):  
Zhong-yuan Kan ◽  
Yuan Yao ◽  
Ping Wang ◽  
Xiong-hui Li ◽  
Yu-hua Hao ◽  
...  
Keyword(s):  
Molecular Crowding ◽  
G Quadruplex ◽  
Quadruplex Formation ◽  
Duplex Formation

Hydration Regulates Thermodynamics of G-Quadruplex Formation under Molecular Crowding Conditions

2006 ◽  
Vol 128 (24) ◽  
pp. 7957-7963 ◽  
Author(s):  
Daisuke Miyoshi ◽  
Hisae Karimata ◽  
Naoki Sugimoto
Keyword(s):  
Molecular Crowding ◽  
G Quadruplex ◽  
Quadruplex Formation

Molecular Crowding Induces Telomere G-Quadruplex Formation under Salt-Deficient Conditions and Enhances its Competition with Duplex Formation

2006 ◽  
Vol 45 (10) ◽  
pp. 1629-1632 ◽  
Author(s):  
Zhong-yuan Kan ◽  
Yuan Yao ◽  
Ping Wang ◽  
Xiong-hui Li ◽  
Yu-hua Hao ◽  
...  
Keyword(s):  
Molecular Crowding ◽  
G Quadruplex ◽  
Quadruplex Formation ◽  
Duplex Formation

scholarly journals DNA polymerase δ stalls on telomeric lagging strand templates independently from G-quadruplex formation

2013 ◽  
Vol 41 (22) ◽  
pp. 10323-10333 ◽  
Author(s):  
Justin D. Lormand ◽  
Noah Buncher ◽  
Connor T. Murphy ◽  
Parminder Kaur ◽  
Marietta Y. Lee ◽  
...  
Keyword(s):  
Dna Polymerase ◽  
Dna Polymerase Δ ◽  
G Quadruplex ◽  
Quadruplex Formation ◽  
Lagging Strand

scholarly journals TGF‐β‐induced fibrotic stress increases G‐quadruplex formation in human fibroblasts

FEBS Letters ◽  
2019 ◽  
Vol 593 (22) ◽  
pp. 3149-3161 ◽  
Author(s):  
Priyanka Toshniwal ◽  
Michelle Nguyen ◽  
Aurore Guédin ◽  
Helena Viola ◽  
Diwei Ho ◽  
...  
Keyword(s):  
Human Fibroblasts ◽  
G Quadruplex ◽  
Quadruplex Formation

Inhibition of Protein Synthesis Through RNA-Based Tandem G-Quadruplex Formation

2021 ◽  
Author(s):  
Masaki Hagihara
Keyword(s):  
Protein Synthesis ◽  
Reverse Transcriptase ◽  
Repeat Sequences ◽  
Guanine Quadruplex ◽  
G Quadruplex ◽  
Inhibition Of Protein Synthesis ◽  
Quadruplex Formation

Tandem guanine repeat sequences can adopt guanine quadruplex (G-quadruplex) structures and consecutive guanine repeat sequences can potentially afford multiple G-quadruplex structures. By using a reverse transcriptase stop assay and biophysical...

scholarly journals Structure and Stability of a Dimeric G-Quadruplex Formed by Cyclic Oligonucleotides

2010 ◽  
Vol 2010 ◽  
pp. 1-6 ◽  
Author(s):  
Joan Casals ◽  
Júlia Viladoms ◽  
Enrique Pedroso ◽  
Carlos González
Keyword(s):  
Telomeric Repeat ◽  
High Melting ◽  
Structure And Stability ◽  
Dimeric Structure ◽  
Nmr Data ◽  
High Melting Temperature ◽  
Sodium Nmr ◽  
G Quadruplex ◽  
Global Topology ◽  
Quadruplex Formation

We have studied the structure and stability of the cyclic dodecamer d<pGGGTTAGGGTTA>, containing two copies of the human telomeric repeat. In the presence of sodium, NMR data are consistent with a dimeric structure of the molecule in which two cycles self-associate forming a quadruplex with three guanine tetrads connected by edgewise loops. The two macrocycles are arranged in a parallel way, and the dimeric structure exhibits a high melting temperature. These results indicate that cyclization of the phosphodiester chain does not prevent quadruplex formation, although it affects the global topology of the quadruplex.

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