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Literature DB >> 6591181

Statistical mechanics of the B----Z transition of DNA: contribution of diffuse ionic interactions.

Abstract

A theoretical framework is constructed to treat the effects of salt ions on polyionic structural transitions in the absence of specific ion binding. As an application, the salt concentration-dependent part of the free energy difference governing the B----ZI transition of [d(C-G) . d(C-G)]6 in 1:1 electrolytes is calculated; quantitative agreement with the experimental findings is obtained. The effects of temperature and multivalent cations are also discussed. Preliminary calculations indicate that the ZII conformation in solution is thermodynamically less favorable than ZI in the high-salt regime (2.0-5.0 M) but more favorable than ZI below 2.0 M salt.

Entities: Chemical

Mesh：

Substances：
DNA

Year: 1984 PMID： 6591181 PMCID： PMC391648 DOI： 10.1073/pnas.81.16.5116

Source DB: PubMed Journal: Proc Natl Acad Sci U S A ISSN： 0027-8424 Impact factor: 11.205

29 in total

1. On the theory of ionic solutions.

Authors: W Olivares; D A McQuarrie
Journal: Biophys J Date: 1975-02 Impact factor: 4.033

2. Polymorphism of a synthetic DNA in solution.

Authors: F M Pohl
Journal: Nature Date: 1976-03-25 Impact factor: 49.962

Review 3. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides.

Authors: G S Manning
Journal: Q Rev Biophys Date: 1978-05 Impact factor: 5.318

4. Salt-induced co-operative conformational change of a synthetic DNA: equilibrium and kinetic studies with poly (dG-dC).

Authors: F M Pohl; T M Jovin
Journal: J Mol Biol Date: 1972-06-28 Impact factor: 5.469

5. Sites and thermodynamic quantities associated with proton and metal ion interaction with ribonucleic acid, deoxyribonucleic acid, and their constituent bases, nucleosides, and nucleotides.

Authors: R M Izatt; J J Christensen; J H Rytting
Journal: Chem Rev Date: 1971-10 Impact factor: 60.622

6. Molecular structure of a left-handed double helical DNA fragment at atomic resolution.

Authors: A H Wang; G J Quigley; F J Kolpak; J L Crawford; J H van Boom; G van der Marel; A Rich
Journal: Nature Date: 1979-12-13 Impact factor: 49.962

7. High-salt d(CpGpCpG), a left-handed Z' DNA double helix.

Authors: H Drew; T Takano; S Tanaka; K Itakura; R E Dickerson
Journal: Nature Date: 1980-08-07 Impact factor: 49.962

8. "Alternating B-DNA" conformation for the oligo(dG-dC) duplex in high-salt solution.

Authors: D J Patel; L L Canuel; F M Pohl
Journal: Proc Natl Acad Sci U S A Date: 1979-06 Impact factor: 11.205

9. Left-handed DNA helices.

Authors: S Arnott; R Chandrasekaran; D L Birdsall; A G Leslie; R L Ratliff
Journal: Nature Date: 1980-02-21 Impact factor: 49.962

Review 10. Left-handed DNA: from synthetic polymers to chromosomes.

Authors: T M Jovin; L P McIntosh; D J Arndt-Jovin; D A Zarling; M Robert-Nicoud; J H van de Sande; K F Jorgenson; F Eckstein
Journal: J Biomol Struct Dyn Date: 1983-10

15 in total

1. A simple explanation of the electrostatics of the B-to-Z transition of DNA.

Authors: M Guéron; J P Demaret
Journal: Proc Natl Acad Sci U S A Date: 1992-07-01 Impact factor: 11.205

2. The transition between the B and Z conformations of DNA investigated by targeted molecular dynamics simulations with explicit solvation.

Authors: Mika A Kastenholz; Thomas U Schwartz; Philippe H Hünenberger
Journal: Biophys J Date: 2006-10-15 Impact factor: 4.033

3. Computation of ionic distributions around charged biomolecular structures: results for right-handed and left-handed DNA.

Authors: R Klement; D M Soumpasis; T M Jovin
Journal: Proc Natl Acad Sci U S A Date: 1991-06-01 Impact factor: 11.205

Statistical mechanics of the B----Z transition of DNA: contribution of diffuse ionic interactions.

1. On the theory of ionic solutions.

2. Polymorphism of a synthetic DNA in solution.

Review 3. The molecular theory of polyelectrolyte solutions with applications to the electrostatic properties of polynucleotides.

4. Salt-induced co-operative conformational change of a synthetic DNA: equilibrium and kinetic studies with poly (dG-dC).

5. Sites and thermodynamic quantities associated with proton and metal ion interaction with ribonucleic acid, deoxyribonucleic acid, and their constituent bases, nucleosides, and nucleotides.

6. Molecular structure of a left-handed double helical DNA fragment at atomic resolution.

7. High-salt d(CpGpCpG), a left-handed Z' DNA double helix.

8. "Alternating B-DNA" conformation for the oligo(dG-dC) duplex in high-salt solution.

9. Left-handed DNA helices.

Review 10. Left-handed DNA: from synthetic polymers to chromosomes.

1. A simple explanation of the electrostatics of the B-to-Z transition of DNA.

2. The transition between the B and Z conformations of DNA investigated by targeted molecular dynamics simulations with explicit solvation.

3. Computation of ionic distributions around charged biomolecular structures: results for right-handed and left-handed DNA.

4. Electrostatic potential of B-DNA: effect of interionic correlations.

5. (In)validity of the constant field and constant currents assumptions in theories of ion transport.

6. Potential of mean force treatment of salt-mediated protein crystallization.

7. A computational approach to modeling nucleic acid hairpin structures.

8. Investigation of B-Z transitions with DNA oligonucleotides containing 8-methylguanine.

9. New DNA polymorphism: evidence for a low salt, left-handed form of poly(dG-m5dC).

10. Cation radius effects on the helix-coil transition of DNA. Cryptates and other large cations.