Literature DB >> 19943071

Differential stabilization of adenine quartets by anions and cations.

Tushar van der Wijst1, Bernhard Lippert, Marcel Swart, Célia Fonseca Guerra, F Matthias Bickelhaupt.   

Abstract

We have investigated the structures and stabilities of four different adenine quartets with alkali and halide ions in the gas phase and in water, using dispersion-corrected density functional theory at the BLYP-D/TZ2P level. First, we examine the empty quartets and how they interact with alkali cations and halide anions with formation of adenine quartet-ion complexes. Second, we examine the interaction in a stack, in which a planar adenine quartet interacts with a cation or anion in the periphery as well as in the center of the quartet. Interestingly, for the latter situation, we find that both cations and anions can stabilize a planar adenine quartet in a stack.

Entities:  

Mesh:

Substances:

Year:  2009        PMID: 19943071      PMCID: PMC2830606          DOI: 10.1007/s00775-009-0611-8

Source DB:  PubMed          Journal:  J Biol Inorg Chem        ISSN: 0949-8257            Impact factor:   3.358


  18 in total

1.  Structure and K+ ion-dependent stability of a parallel-stranded DNA quadruplex containing a core A-tetrad.

Authors:  Mark S Searle; Huw E L Williams; Cathal T Gallagher; Richard J Grant; Malcolm F G Stevens
Journal:  Org Biomol Chem       Date:  2004-02-18       Impact factor: 3.876

2.  Anion binding to nucleic acids.

Authors:  Pascal Auffinger; Lukasz Bielecki; Eric Westhof
Journal:  Structure       Date:  2004-03       Impact factor: 5.006

3.  A luminescent silver-adenine metallamacrocyclic quartet.

Authors:  Chandra Shekhar Purohit; Sandeep Verma
Journal:  J Am Chem Soc       Date:  2006-01-18       Impact factor: 15.419

4.  Semiempirical GGA-type density functional constructed with a long-range dispersion correction.

Authors:  Stefan Grimme
Journal:  J Comput Chem       Date:  2006-11-30       Impact factor: 3.376

5.  Base-tetrad swapping results in dimerization of RNA quadruplexes: implications for formation of the i-motif RNA octaplex.

Authors:  Baocheng Pan; Ke Shi; Muttaiya Sundaralingam
Journal:  Proc Natl Acad Sci U S A       Date:  2006-02-21       Impact factor: 11.205

6.  Observation of the coexistence of sodium and calcium ions in a DNA G-quadruplex ion channel.

Authors:  Michael P H Lee; Gary N Parkinson; Pascale Hazel; Stephen Neidle
Journal:  J Am Chem Soc       Date:  2007-07-28       Impact factor: 15.419

7.  Aptamers as elements of bioelectronic devices.

Authors:  Mònica Mir; Ioanis Katakis
Journal:  Mol Biosyst       Date:  2007-07-20

8.  Self-assembled ionophores from isoguanosine: diffusion NMR spectroscopy clarifies cation's and anion's influence on supramolecular structure.

Authors:  Tamar Evan-Salem; Limor Frish; Fijs W B van Leeuwen; David N Reinhoudt; Willem Verboom; Mark S Kaucher; Jeffery T Davis; Yoram Cohen
Journal:  Chemistry       Date:  2007       Impact factor: 5.236

9.  X-ray analysis of an RNA tetraplex (UGGGGU)(4) with divalent Sr(2+) ions at subatomic resolution (0.61 A).

Authors:  J Deng; Y Xiong; M Sundaralingam
Journal:  Proc Natl Acad Sci U S A       Date:  2001-11-13       Impact factor: 11.205

10.  Accurate description of van der Waals complexes by density functional theory including empirical corrections.

Authors:  Stefan Grimme
Journal:  J Comput Chem       Date:  2004-09       Impact factor: 3.376

View more
  4 in total

1.  Human Virus Genomes Are Enriched in Conserved Adenine/Thymine/Uracil Multiple Tracts That Pause Polymerase Progression.

Authors:  Emanuela Ruggiero; Enrico Lavezzo; Marco Grazioli; Irene Zanin; Maja Marušič; Janez Plavec; Sara N Richter; Stefano Toppo
Journal:  Front Microbiol       Date:  2022-06-01       Impact factor: 6.064

2.  Berberrubine Phosphate: A Selective Fluorescent Probe for Quadruplex DNA.

Authors:  Peter Jonas Wickhorst; Heiko Ihmels
Journal:  Molecules       Date:  2021-04-28       Impact factor: 4.411

3.  Halogen Bonds in Ligand-Protein Systems: Molecular Orbital Theory for Drug Design.

Authors:  Enrico Margiotta; Stephanie C C van der Lubbe; Lucas de Azevedo Santos; Gabor Paragi; Stefano Moro; F Matthias Bickelhaupt; Célia Fonseca Guerra
Journal:  J Chem Inf Model       Date:  2020-02-13       Impact factor: 4.956

4.  Substituted adenine quartets: interplay between substituent effect, hydrogen bonding, and aromaticity.

Authors:  Halina Szatylowicz; Paulina H Marek; Olga A Stasyuk; Tadeusz M Krygowski; Miquel Solà
Journal:  RSC Adv       Date:  2020-06-18       Impact factor: 4.036

  4 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.