V. Adrian Parsegian, R.P. Rand, N. L. Fuller et al.|Methods in enzymology on CD-ROM/Methods in enzymology|1986
Cited by 499
National Institutes of Health
Publishes on DNA and Nucleic Acid Chemistry, Electrostatics and Colloid Interactions, Nanopore and Nanochannel Transport Studies. 36 papers and 4.7k citations.
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There has been much confusion recently about the relative merits of different approaches, osmotic stress, preferential interaction, and crowding, to describe the indirect effect of solutes on macromolecular conformations and reactions. To strengthen all interpretations of measurements and to forestall further unnecessary conceptual or linguistic confusion, we show here how the different perspectives all can be reconciled. Our approach is through the Gibbs-Duhem relation, the universal constraint on the number of ways it is possible to change the temperature, pressure, and chemical potentials of the several components in any thermodynamically defined system. From this general Gibbs-Duhem equation, it is possible to see the equivalence of the different perspectives and even to show the precise identity of the more specialized equations that the different approaches use.
Machine learning (ML) is transforming all areas of science. The complex and time-consuming calculations in molecular simulations are particularly suitable for an ML revolution and have already been profoundly affected by the application of existing ML ...Read More
We have measured the repulsive force between B-form double helices in parallel packed arrays of polymer-condensed DNA in the presence of 0.005-1.0 M ionic solutions. Molecular repulsion is consistently exponential with a 2.5-3.5 A decay distance, when the separation between DNA surfaces is 5-15 A. Only weakly dependent on ionic strength and independent of molecular size, this intermolecular repulsion does not obey the predictions of electrostatic double-layer theory. Rather, it strongly resembles the "hydration force" first recognized and quantified between phospholipid bilayers. Only beyond 15 A separation between molecules is there evidence of electrostatic double-layer forces. The quantitative failure of electrostatic double-layer theory seen here must gravely affect accepted analyses of other polyelectrolyte systems. Because the packing of condensed DNA resembles the spacings of DNA in many bacteriophages, our results permit estimation of the "DNA pressure" in phage heads.