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Na⁺ Shows a Markedly Higher Potential than K⁺ in DNA Compaction in a Crowded Environment

Department of Physics, Graduate School of Science, Kyoto University, Sakyo, Kyoto, Japan

Correspondence: Address reprint requests to Anatoly A. Zinchenko, E-mail: zinchenko{at}chem.scphys.kyoto-u.ac.jp.

Whereas many physicochemical investigations have shown that among monovalent cations Na⁺ ion possesses minimal potential for DNA binding, biological assays have shown that Na⁺ ion (in contrast to K⁺ ion) plays a primary role in chromatin compaction and related processes. It is difficult to explain this inverse relationship between the compaction potentials of Na⁺ and K⁺ and their binding abilities. In this study we sought to resolve this contradiction and emphasize the phenomenological distinction between DNA compaction and DNA binding processes in the case of DNA compaction by monocations. Using polyethylene glycol solutions as a model of a crowded cell environment, we studied DNA compaction by alkali metal salts LiCl, NaCl, KCl, RbCl, and CsCl, and found that all of these monocations promote DNA compaction. Among these monovalent cations Na⁺ produces the greatest compaction and the ratio of K⁺ cand Na⁺ oncentrations for DNA compaction is 1.5–2. A comparative analysis of recent experimental results indicates that a higher binding activity of monocation generally corresponds to a low compaction potential of the corresponding monovalent ion. This inverse relation is explained as a result of partial dehydration of monocations in the compact state.

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