Literature DB >> 20087624

Symmetry of electrostatic interaction between pyrophosphate DNA molecules.

V L Golo1, E I Kats, S A Kuznetsova, Yu S Volkov.   

Abstract

We study chiral electrostatic interaction between artificial ideal homopolymer DNA-like molecules in which a number of phosphate groups of the sugar-phosphate backbone are exchanged for the pyrophosphate ones. We employ a model in which the DNA is considered as a one-dimensional lattice of dipoles and charges corresponding to base pairs and (pyro)phosphate groups, respectively. The interaction between molecules of the DNA is described by a pair potential U of electrostatic forces between the two sets of dipoles and charges belonging to respective lattices describing the molecules. Minima of the potential U indicate orientational ordering of the molecules and thus liquid crystalline phases of the DNA. We use numerical methods for finding the set of minima in conjunction with symmetries verified by the potential U . The symmetries form a non-commutative group of 8th order, S . Using the group S we suggest a classification of liquid crystalline phases of the DNA, which allows several cholesteric phases, that is polymorphism. Pyrophosphate forms of the DNA could clarify the role played by charges in their liquid crystalline phases, and open experimental research, important for nano-technological and bio-medical applications.

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Year:  2010        PMID: 20087624     DOI: 10.1140/epje/i2010-10549-7

Source DB:  PubMed          Journal:  Eur Phys J E Soft Matter        ISSN: 1292-8941            Impact factor:   1.890


  15 in total

1.  Twist in chiral interaction between biological helices.

Authors:  A A Kornyshev; S Leikin
Journal:  Phys Rev Lett       Date:  2000-03-13       Impact factor: 9.161

2.  A new affinity reagent for the site-specific, covalent attachment of DNA to active-site nucleophiles: application to the EcoRI and RsrI restriction and modification enzymes.

Authors:  A A Purmal; Z A Shabarova; R I Gumport
Journal:  Nucleic Acids Res       Date:  1992-07-25       Impact factor: 16.971

3.  Direct observation of azimuthal correlations between DNA in hydrated aggregates.

Authors:  Alexei A Kornyshev; Dominic J Lee; Sergey Leikin; Aaron Wynveen; Steven B Zimmerman
Journal:  Phys Rev Lett       Date:  2005-09-29       Impact factor: 9.161

4.  DNA cholesteric pitch as a function of density and ionic strength.

Authors:  Christopher B Stanley; Helen Hong; Helmut H Strey
Journal:  Biophys J       Date:  2005-07-22       Impact factor: 4.033

5.  DNA cholesteric phases: the role of DNA molecular chirality and DNA-DNA electrostatic interactions.

Authors:  A G Cherstvy
Journal:  J Phys Chem B       Date:  2008-09-12       Impact factor: 2.991

6.  Cross-linking of SsoII restriction endonuclease to cognate and non-cognate DNAs.

Authors:  E A Kubareva; S A Kuznetsova; A S Karyagina; I I Nikolskaya; E S Gromova; Z A Shabarova
Journal:  FEBS Lett       Date:  1996-07-29       Impact factor: 4.124

7.  Supramolecular ordering of DNA in the cholesteric liquid crystalline phase: an ultrastructural study.

Authors:  A Leforestier; F Livolant
Journal:  Biophys J       Date:  1993-07       Impact factor: 4.033

8.  Crosslinking of double-stranded oligonucleotides containing O-methyl-substituted pyrophosphate groups to the HNF1 transcription factor in nuclear cell extract.

Authors:  S A Kuznetsova; C Clusel; E Ugarte; I Elias; M Vasseur; M Blumenfeld; Z A Shabarova
Journal:  Nucleic Acids Res       Date:  1996-12-01       Impact factor: 16.971

9.  Transverse dipoles added to DNA chains by drug binding can induce inversion of the long-range chirality of DNA condensates.

Authors:  B Samorĭ; M A Osipov; I Domini; A Bartolini
Journal:  Int J Biol Macromol       Date:  1993-12       Impact factor: 6.953

10.  Electrostatic interaction between helical macromolecules in dense aggregates: an impetus for DNA poly- and meso-morphism.

Authors:  A A Kornyshev; S Leikin
Journal:  Proc Natl Acad Sci U S A       Date:  1998-11-10       Impact factor: 11.205

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