scholarly journals G-quadruplex conformation and dynamics are determined by loop length and sequence

2014 ◽  
Vol 42 (12) ◽  
pp. 8106-8114 ◽  
Author(s):  
Ramreddy Tippana ◽  
Weikun Xiao ◽  
Sua Myong
Keyword(s):  
Loop Length ◽  
G Quadruplex

scholarly journals A Sequence-Independent Analysis of the Loop Length Dependence of Intramolecular RNA G-Quadruplex Stability and Topology

Biochemistry ◽  
2011 ◽  
Vol 50 (33) ◽  
pp. 7251-7258 ◽  
Author(s):  
Amy Y. Q. Zhang ◽  
Anthony Bugaut ◽  
Shankar Balasubramanian
Keyword(s):  
Loop Length ◽  
Length Dependence ◽  
And Topology ◽  
Independent Analysis ◽  
G Quadruplex

G-Quadruplex DNA Assemblies: Loop Length, Cation Identity, and Multimer Formation†

2008 ◽  
Vol 130 (31) ◽  
pp. 10208-10216 ◽  
Author(s):  
Nicolas Smargiasso ◽  
Frédéric Rosu ◽  
Wei Hsia ◽  
Pierre Colson ◽  
Erin Shammel Baker ◽  
...  
Keyword(s):  
Loop Length ◽  
Quadruplex Dna ◽  
G Quadruplex

scholarly journals Short loop length and high thermal stability determine genomic instability induced by G‐quadruplex‐forming minisatellites

2015 ◽  
Vol 34 (12) ◽  
pp. 1718-1734 ◽  
Author(s):  
Aurèle Piazza ◽  
Michael Adrian ◽  
Frédéric Samazan ◽  
Brahim Heddi ◽  
Florian Hamon ◽  
...  
Keyword(s):  
Thermal Stability ◽  
Genomic Instability ◽  
High Thermal Stability ◽  
Loop Length ◽  
Short Loop ◽  
G Quadruplex

Unimolecular antiparallel G-quadruplex folding topology of 2′–5′-isoTBA sequences remains unaltered by loop composition

2015 ◽  
Vol 13 (48) ◽  
pp. 11696-11703 ◽  
Author(s):  
Manisha N. Aher ◽  
Namrata D. Erande ◽  
Moneesha Fernandes ◽  
Vaijayanti A. Kumar
Keyword(s):  
Loop Length ◽  
G Quadruplex

Unlike 3′–5′-linked TBA, the 2′–5′-linked isoTBA formed only unimolecular antiparallel G-quadruplexes independent of loop length.

scholarly journals Effects of Central Loop Length and Metal Ions on the Thermal Stability of G-Quadruplexes

Molecules ◽  
2019 ◽  
Vol 24 (10) ◽  
pp. 1863 ◽  
Author(s):  
Fengjin Hao ◽  
Yushu Ma ◽  
Yifu Guan
Keyword(s):  
Thermal Stability ◽  
Stability Analysis ◽  
Difference Spectrum ◽  
Loop Length ◽  
Rna Sequences ◽  
Quadruplex Structure ◽  
G Quadruplex ◽  
The Stability ◽  
Central Loop ◽  
Uv Melting

The central loop of G-quadruplex molecular beacons is a key element to sense target DNA or RNA sequences. In this study, circular dichroism spectroscopy (CD), thermal difference spectrum (TDS), non-denatured non-denaturing gel electrophoresis, and thermal stability analysis were used to investigate the effect of the central loop length on G-quadruplex features. Two series of G-quadruplexes, AG3TTAG3-(TTA)n-G3TTAG3T (n = 1–8) (named TTA series) and AG3TTTG3-(TTA)n-G3TTTG3T (n = 1–8) (named TTT series) were examined in K+ and Na+ solutions, respectively. CD and TDS spectral data indicated that TTA series adopted an antiparallel G-quadruplex structure in Na+ solution and a hybrid G-quadruplex structure in K+ solution respectively. TTT series exhibited a hybrid G-quadruplex structure in both Na+ and K+ solutions. UV melting curves indicated that the stability of G-quadruplex in both series was reduced by the elongation of central loop. Thermal stability analysis concluded that the G-quadruplex destabilization with long central loop is an entropy-driven process due to more flexible and longer central loops.

scholarly journals Solution Structure of a MYC Promoter G-Quadruplex with 1:6:1 Loop Length

ACS Omega ◽  
2019 ◽  
Vol 4 (2) ◽  
pp. 2533-2539 ◽  
Author(s):  
Jonathan Dickerhoff ◽  
Buket Onel ◽  
Luying Chen ◽  
Yuwei Chen ◽  
Danzhou Yang
Keyword(s):  
Solution Structure ◽  
Loop Length ◽  
G Quadruplex

scholarly journals Assembly of a G-Quadruplex Repair Complex by the FANCJ DNA Helicase and the REV1 Polymerase

Genes ◽  
2019 ◽  
Vol 11 (1) ◽  
pp. 5
Author(s):  
Kaitlin Lowran ◽  
Laura Campbell ◽  
Phillip Popp ◽  
Colin G. Wu
Keyword(s):  
Dna Replication ◽  
Fluorescence Spectroscopy ◽  
Dna Helicase ◽  
Human Cells ◽  
Loop Length ◽  
Interacting Protein ◽  
Biolayer Interferometry ◽  
G4 Dna ◽  
G Quadruplex ◽  
The Impact

The FANCJ helicase unfolds G-quadruplexes (G4s) in human cells to support DNA replication. This action is coupled to the recruitment of REV1 polymerase to synthesize DNA across from a guanine template. The precise mechanisms of these reactions remain unclear. While FANCJ binds to G4s with an AKKQ motif, it is not known whether this site recognizes damaged G4 structures. FANCJ also has a PIP-like (PCNA Interacting Protein) region that may recruit REV1 to G4s either directly or through interactions mediated by PCNA protein. In this work, we measured the affinities of a FANCJ AKKQ peptide for G4s formed by (TTAGGG)4 and (GGGT)4 using fluorescence spectroscopy and biolayer interferometry (BLI). The effects of 8-oxoguanine (8oxoG) on these interactions were tested at different positions. BLI assays were then performed with a FANCJ PIP to examine its recruitment of REV1 and PCNA. FANCJ AKKQ bound tightly to a TTA loop and was sequestered away from the 8oxoG. Reducing the loop length between guanine tetrads increased the affinity of the peptide for 8oxoG4s. FANCJ PIP targeted both REV1 and PCNA but favored interactions with the REV1 polymerase. The impact of these results on the remodeling of damaged G4 DNA is discussed herein.

scholarly journals G‐Quadruplex Loop Length Regulates PARP‐1 Enzymatic Activation

2019 ◽  
Vol 33 (S1) ◽  
Author(s):  
Andrea Edwards ◽  
John Marecki ◽  
Alicia Byrd ◽  
Kevin Raney
Keyword(s):  
Loop Length ◽  
G Quadruplex ◽  
Enzymatic Activation ◽  
Parp 1
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