End-to-End Stacking and Liquid Crystal Condensation of 6- to 20-Base Pair DNA Duplexes

Science ◽  
2007 ◽  
Vol 318 (5854) ◽  
pp. 1276-1279 ◽  
Author(s):  
M. Nakata ◽  
G. Zanchetta ◽  
B. D. Chapman ◽  
C. D. Jones ◽  
J. O. Cross ◽  
...  
Keyword(s):  
Liquid Crystal ◽  
Base Pair ◽  
Dna Duplexes ◽  
End To End

Excess Electron Transfer through DNA Duplexes Comprising a Metal‐Mediated Base Pair

2017 ◽  
Vol 23 (43) ◽  
pp. 10244-10248 ◽  
Author(s):  
Susanne Hensel ◽  
Kevin Eckey ◽  
Philipp Scharf ◽  
Nicole Megger ◽  
Uwe Karst ◽  
...  
Keyword(s):  
Electron Transfer ◽  
Base Pair ◽  
Excess Electron ◽  
Dna Duplexes

Thermodynamics of dT−dT Base Pair Mismatching in Linear DNA Duplexes and Three-Arm DNA Junctions†

Biochemistry ◽  
1997 ◽  
Vol 36 (9) ◽  
pp. 2485-2491 ◽  
Author(s):  
Min Zhong ◽  
Luis A. Marky ◽  
Neville R. Kallenbach ◽  
Donald W. Kupke
Keyword(s):  
Base Pair ◽  
Dna Duplexes ◽  
Linear Dna ◽  
Dna Junctions

scholarly journals Enzymatic Formation of an Artificial Base Pair Using a Modified Adenine Nucleoside Triphosphate

2019 ◽  
Author(s):  
Marie Flamme ◽  
Pascal Röthlisberger ◽  
Fabienne Levi-Acobas ◽  
Mohit Chawla ◽  
Romina Oliva ◽  
...  
Keyword(s):  
Base Pair ◽  
In Vitro Selection ◽  
Solid Phase ◽  
Nucleoside Triphosphate ◽  
Dna Duplexes ◽  
Base Pairs ◽  
Metal Base ◽  
Enzymatic Formation ◽  
Genetic Alphabet

The expansion of the genetic alphabet with additional, unnatural base pairs (UBPs) is an important and long standing goal in synthetic biology. Nucleotides acting as ligands for the coordination of metal cations have advanced as promising candidates for such an expansion of the genetic alphabet. However,the inclusion of artificial metal base pairs in nucleic acids mainly relies on solid-phase synthesis approaches and very little is known on polymerase-mediated synthesis. Herein, we report on the selective and high yielding enzymatic construction of a silver-mediated base pair as well as a two-step protocol for the synthesis of DNA duplexes containing a metal UBP. Guided by DFT calculations, we also shed light into the mechanism of formation of this UBP as well as into the structural and energetic preferences. Even though this silver UBP is not directly amenable to in vitro selection experiments, the enzymatic synthesis of this UBP provides valuable insights for the design of future, more potent systems aiming at expanding the genetic alphabet. <br>

Additional Base-Pair Formation in DNA Duplexes by a Double-Headed Nucleotide

2012 ◽  
Vol 18 (24) ◽  
pp. 7434-7442 ◽  
Author(s):  
Charlotte S. Madsen ◽  
Sarah Witzke ◽  
Pawan Kumar ◽  
Kushuma Negi ◽  
Pawan K. Sharma ◽  
...  
Keyword(s):  
Base Pair ◽  
Pair Formation ◽  
Dna Duplexes ◽  
Additional Base

Frontispiece: Excess Electron Transfer through DNA Duplexes Comprising a Metal‐Mediated Base Pair

2017 ◽  
Vol 23 (43) ◽  
Author(s):  
Susanne Hensel ◽  
Kevin Eckey ◽  
Philipp Scharf ◽  
Nicole Megger ◽  
Uwe Karst ◽  
...  
Keyword(s):  
Electron Transfer ◽  
Base Pair ◽  
Excess Electron ◽  
Dna Duplexes

Effects of molecular motion on charge transfer/transport through DNA duplexes with and without base pair mismatch

2006 ◽  
Vol 32 (9) ◽  
pp. 759-764 ◽  
Author(s):  
E. B. Starikov ◽  
T. Fujita ◽  
H. Watanabe ◽  
Y. Sengoku ◽  
S. Tanaka ◽  
...  
Keyword(s):  
Charge Transfer ◽  
Base Pair ◽  
Molecular Motion ◽  
Dna Duplexes ◽  
Base Pair Mismatch

scholarly journals Insights into the Structures of DNA Damaged by Hydroxyl Radical: Crystal Structures of DNA Duplexes Containing 5-Formyluracil

2010 ◽  
Vol 2010 ◽  
pp. 1-10 ◽  
Author(s):  
Masaru Tsunoda ◽  
Takeshi Sakaue ◽  
Satoko Naito ◽  
Tomoko Sunami ◽  
Naoko Abe ◽  
...  
Keyword(s):  
Crystal Structures ◽  
Dna Polymerase ◽  
Hydroxyl Radicals ◽  
Base Pair ◽  
Structural Basis ◽  
Dna Duplexes ◽  
X Ray ◽  
X Ray Crystallography ◽  
Guanine Base ◽  
New Type

Hydroxyl radicals are potent mutagens that attack DNA to form various base and ribose derivatives. One of the major damaged thymine derivatives is 5-formyluracil (fU), which induces pyrimidine transition during replication. In order to establish the structural basis for such mutagenesis, the crystal structures of two kinds of DNA d(CGCGRATfUCGCG) with R = A/G have been determined by X-ray crystallography. The fU residues form a Watson-Crick-type pair with A and two types of pairs (wobble and reversed wobble) with G, the latter being a new type of base pair between ionized thymine base and guanine base.In silicostructural modeling suggests that the DNA polymerase can accept the reversed wobble pair with G, as well as the Watson-Crick pair with A.

Sign in / Sign up

Export Citation Format

Share Document