Literature DB >> 11927253

DNA-cation interactions: quo vadis?

Martin Egli1.   

Abstract

The interactions between double helical DNA and cations, specifically mono- and divalent metal ions, have recently received increased attention. Molecular dynamics simulations, solution NMR, and X-ray crystallography have all shed light on the coordination of ions in the major and minor grooves of DNA. Metal ion interactions may play key roles in the control of DNA conformation and topology, but despite progress in locating the ions and determining their precise binding modes, it remains difficult to figure out just how important ions really are. What have we learned and what remains to be done?

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Year:  2002        PMID: 11927253     DOI: 10.1016/s1074-5521(02)00116-3

Source DB:  PubMed          Journal:  Chem Biol        ISSN: 1074-5521


  38 in total

1.  Exploring the counterion atmosphere around DNA: what can be learned from molecular dynamics simulations?

Authors:  Manuel Rueda; Elena Cubero; Charles A Laughton; Modesto Orozco
Journal:  Biophys J       Date:  2004-08       Impact factor: 4.033

2.  Influence of magnesium ions on spontaneous opening of DNA base pairs.

Authors:  Alicia E Every; Irina M Russu
Journal:  J Phys Chem B       Date:  2008-05-31       Impact factor: 2.991

Review 3.  Close encounters with DNA.

Authors:  C Maffeo; J Yoo; J Comer; D B Wells; B Luan; A Aksimentiev
Journal:  J Phys Condens Matter       Date:  2014-09-19       Impact factor: 2.333

Review 4.  The many twists and turns of DNA: template, telomere, tool, and target.

Authors:  Martin Egli; Pradeep S Pallan
Journal:  Curr Opin Struct Biol       Date:  2010-04-08       Impact factor: 6.809

5.  Effects of counterions and solvents on the geometrical and vibrational features of dinucleoside-monophosphate (dNMP): case of 3',5'-dideoxycytidine-monophosphate (dDCMP).

Authors:  Alain Minguirbara; Berthelot Saïd Duvalier Ramlina Vamhindi; Stève Jonathan Koyambo-Konzapa; Mama Nsangou
Journal:  J Mol Model       Date:  2020-04-13       Impact factor: 1.810

6.  Quantitative and comprehensive decomposition of the ion atmosphere around nucleic acids.

Authors:  Yu Bai; Max Greenfeld; Kevin J Travers; Vincent B Chu; Jan Lipfert; Sebastian Doniach; Daniel Herschlag
Journal:  J Am Chem Soc       Date:  2007-11-09       Impact factor: 15.419

Review 7.  Crystallographic studies of chemically modified nucleic acids: a backward glance.

Authors:  Martin Egli; Pradeep S Pallan
Journal:  Chem Biodivers       Date:  2010-01       Impact factor: 2.408

8.  Shielding effect of monovalent and divalent cations on solid-phase DNA hybridization: surface plasmon resonance biosensor study.

Authors:  Tomás Springer; Hana Sípová; Hana Vaisocherová; Josef Stepánek; Jirí Homola
Journal:  Nucleic Acids Res       Date:  2010-07-12       Impact factor: 16.971

9.  DNA A-tracts are not curved in solutions containing high concentrations of monovalent cations.

Authors:  Earle Stellwagen; Justin P Peters; L James Maher; Nancy C Stellwagen
Journal:  Biochemistry       Date:  2013-06-06       Impact factor: 3.162

10.  A molecular dynamics simulation study of polyamine- and sodium-DNA. Interplay between polyamine binding and DNA structure.

Authors:  Nikolay Korolev; Alexander P Lyubartsev; Aatto Laaksonen; Lars Nordenskiöld
Journal:  Eur Biophys J       Date:  2004-05-14       Impact factor: 1.733

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