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Biopolymers
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Biopolymers
Article . 1989 . Peer-reviewed
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Biopolymers
Article . 1989
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The electrostatic potential of B‐DNA

Authors: B, Jayaram; K A, Sharp; B, Honig;

The electrostatic potential of B‐DNA

Abstract

AbstractElectrostatic potentials around DNA are obtained by solving the nonlinear Poisson‐Boltzmann (PB) equation. The detailed charge distribution of the DNA and the different polarizabilities of the macromolecule and solvent are included explicitly in the calculations. The PB equation is solved using extensions of a finite difference approach applied previously to proteins. Electrical potentials and ion concentrations are compared to those obtained with simpler models. It is found that the shape of the dielectric boundary between the macromolecule and solvent has significant effects on the calculated potentials near the surface, particularly in the grooves. Sequence‐specific patterns are found, the most surprising result being the existence of positive regions of potential near the bases in both the major and minor grooves. The effect of solvent and ionic atmosphere screening of phosphate‐phosphate repulsions is studied, and an effective dielectric function, appropriate for molecular mechanics simulations, is derived.

Related Organizations
Keywords

Oligodeoxyribonucleotides, Electrochemistry, Nucleic Acid Conformation, DNA

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
268
Top 10%
Top 1%
Top 1%
bronze