Literature DB >> 18326632

Attractive forces between cation condensed DNA double helices.

Brian A Todd1, V Adrian Parsegian, Akira Shirahata, T J Thomas, Donald C Rau.   

Abstract

By combining single-molecule magnetic tweezers and osmotic stress on DNA assemblies, we separate attractive and repulsive components of the total intermolecular interaction between multivalent cation condensed DNA. Based on measurements of several different cations, we identify two invariant properties of multivalent cation-mediated DNA interactions: repulsive forces decay exponentially with a 2.3 +/- 0.1 A characteristic decay length and the attractive component of the free energy is always 2.3 +/- 0.2 times larger than the repulsive component of the free energy at force-balance equilibrium. These empirical constraints are not consistent with current theories that attribute DNA-DNA attractions to a correlated lattice of counterions. The empirical constraints are consistent with theories for Debye-Hückel interactions between helical line charges and with the order-parameter formalism for hydration forces. Each of these theories posits exponentially decaying attractions and, if we assume this form, our measurements indicate a cation-independent, 4.8 +/- 0.5 A characteristic decay length for intermolecular attractions between condensed DNA molecules.

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Year:  2008        PMID: 18326632      PMCID: PMC2397328          DOI: 10.1529/biophysj.107.127332

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  26 in total

1.  Cryoelectron microscopy of lambda phage DNA condensates in vitreous ice: the fine structure of DNA toroids.

Authors:  N V Hud; K H Downing
Journal:  Proc Natl Acad Sci U S A       Date:  2001-12-04       Impact factor: 11.205

2.  Direct mechanical measurements of the elasticity of single DNA molecules by using magnetic beads.

Authors:  S B Smith; L Finzi; C Bustamante
Journal:  Science       Date:  1992-11-13       Impact factor: 47.728

3.  Noncritical behavior of density fluctuations in supercooled water.

Authors: 
Journal:  Phys Rev Lett       Date:  1993-09-27       Impact factor: 9.161

Review 4.  DNA--DNA interactions.

Authors:  H H Strey; R Podgornik; D C Rau; V A Parsegian
Journal:  Curr Opin Struct Biol       Date:  1998-06       Impact factor: 6.809

5.  Behavior of supercoiled DNA.

Authors:  T R Strick; J F Allemand; D Bensimon; V Croquette
Journal:  Biophys J       Date:  1998-04       Impact factor: 4.033

6.  Ion-mediated nucleic acid helix-helix interactions.

Authors:  Zhi-Jie Tan; Shi-Jie Chen
Journal:  Biophys J       Date:  2006-04-28       Impact factor: 4.033

7.  Measurement of the repulsive force between polyelectrolyte molecules in ionic solution: hydration forces between parallel DNA double helices.

Authors:  D C Rau; B Lee; V A Parsegian
Journal:  Proc Natl Acad Sci U S A       Date:  1984-05       Impact factor: 11.205

8.  Preferential hydration of DNA: the magnitude and distance dependence of alcohol and polyol interactions.

Authors:  Christopher Stanley; Donald C Rau
Journal:  Biophys J       Date:  2006-05-19       Impact factor: 4.033

9.  Exclusion of alcohols from spermidine-DNA assemblies: probing the physical basis of preferential hydration.

Authors:  Anne Hultgren; Donald C Rau
Journal:  Biochemistry       Date:  2004-06-29       Impact factor: 3.162

10.  DNA condensation by cobalt hexaammine (III) in alcohol-water mixtures: dielectric constant and other solvent effects.

Authors:  P G Arscott; C Ma; J R Wenner; V A Bloomfield
Journal:  Biopolymers       Date:  1995-09       Impact factor: 2.505

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  45 in total

1.  Divalent counterion-induced condensation of triple-strand DNA.

Authors:  Xiangyun Qiu; V Adrian Parsegian; Donald C Rau
Journal:  Proc Natl Acad Sci U S A       Date:  2010-11-22       Impact factor: 11.205

2.  Cation charge dependence of the forces driving DNA assembly.

Authors:  Jason DeRouchey; V Adrian Parsegian; Donald C Rau
Journal:  Biophys J       Date:  2010-10-20       Impact factor: 4.033

3.  Stress-induced condensation of bacterial genomes results in re-pairing of sister chromosomes: implications for double strand DNA break repair.

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Journal:  J Biol Chem       Date:  2013-07-24       Impact factor: 5.157

4.  Local structure of DNA toroids reveals curvature-dependent intermolecular forces.

Authors:  Luca Barberi; Françoise Livolant; Amélie Leforestier; Martin Lenz
Journal:  Nucleic Acids Res       Date:  2021-04-19       Impact factor: 16.971

5.  Molecular dynamics simulations of DNA-polycation complex formation.

Authors:  Jesse Ziebarth; Yongmei Wang
Journal:  Biophys J       Date:  2009-10-07       Impact factor: 4.033

6.  Electrostatic exclusion of neutral solutes from condensed DNA and other charged phases.

Authors:  Brian A Todd
Journal:  Biophys J       Date:  2009-07-22       Impact factor: 4.033

7.  Nanogap dielectric spectroscopy for aptamer-based protein detection.

Authors:  Manu Sebastian Mannoor; Teena James; Dentcho V Ivanov; Les Beadling; William Braunlin
Journal:  Biophys J       Date:  2010-02-17       Impact factor: 4.033

8.  Sequence-dependent DNA condensation as a driving force of DNA phase separation.

Authors:  Hyunju Kang; Jejoong Yoo; Byeong-Kwon Sohn; Seung-Won Lee; Hong Soo Lee; Wenjie Ma; Jung-Min Kee; Aleksei Aksimentiev; Hajin Kim
Journal:  Nucleic Acids Res       Date:  2018-10-12       Impact factor: 16.971

Review 9.  New tricks for old dogs: improving the accuracy of biomolecular force fields by pair-specific corrections to non-bonded interactions.

Authors:  Jejoong Yoo; Aleksei Aksimentiev
Journal:  Phys Chem Chem Phys       Date:  2018-03-28       Impact factor: 3.676

10.  Tuning DNA Condensation with Zwitterionic Polyamidoamine (zPAMAM) Dendrimers.

Authors:  Min An; Gulen Yesilbag Tonga; Sean R Parkin; Vincent M Rotello; Jason E DeRouchey
Journal:  Macromolecules       Date:  2017-10-09       Impact factor: 5.985

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