Hydration change on complexation of aromatic ligands with DNA: Molecular dynamics simulations

Research output: Contribution to journalResearch articleContributedpeer-review

Contributors

Abstract

Aim. Analysis of the hydration changes at formation of DNA complexes with biologically active aromatic compounds (BAC): antibiotics actinomycin D, daunomycin, nogalamycin, novantrone and mutagens ethidium bromide and proflavine. Methods. Molecular dynamics simulations. Results. The hydration indexes for double-helical DNA and ligands in a free and complexed states were calculated. A critical analysis of modern ideas about changing water environment at binding of aromatic ligands to DNA was performed. Conclusions. It is shown that upon binding of aromatic BAC with DNA a significant (from 2.6 for novantrone to 13.1 for actinomycin D) liberation of water molecules out of hydration shells with the disruption of hydrogen bonds takes place.

Details

Original languageEnglish
Pages (from-to)36-44
Number of pages9
JournalBiopolymers & cell
Volume26
Issue number1
Publication statusPublished - 2010
Peer-reviewedYes

External IDs

ORCID /0000-0002-2335-0260/work/142246472

Keywords

Keywords

  • Aromatic ligand, Double-helical DNA, Hydration index, Water release