Premium
Partition of thermodynamic energies of drug–DNA complexation
Author(s) -
Kostjukov V. V.,
Khomytova N. M.,
Evstigneev M. P.
Publication year - 2009
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.21227
Subject(s) - chemistry , dna , partition (number theory) , binding energy , computational chemistry , molecule , thermodynamics , computation , stereochemistry , organic chemistry , biochemistry , atomic physics , physics , mathematics , combinatorics , algorithm , computer science
Abstract We report a computation methodology, which leads to the ability to partition the Gibb's free energy for the complexation reaction of aromatic drug molecules with DNA. Using this approach, it is now possible to calculate the absolute values of the energy contributions of various physical factors to the DNA binding process, whose summation gives a value that is reasonably close to the experimentally measured Gibb's free energy of binding. Application of the methodology to binding of various aromatic drugs with DNA provides an answer to the question “What forces are the main contributors to the stabilization of aromatic ligand–DNA complexes?” © 2009 Wiley Periodicals, Inc. Biopolymers 91: 773–790, 2009. This article was originally published online as an accepted preprint. The “Published Online” date corresponds to the preprint version. You can request a copy of the preprint by emailing the Biopolymers editorial office at biopolymers@wiley.com