PMID: 7753866May 9, 1995Paper

On the magnitude of the electrostatic contribution to ligand-DNA interactions

Proceedings of the National Academy of Sciences of the United States of America
V K Misra, B Honig

Abstract

A model based on the nonlinear Poisson-Boltzmann equation is used to study the electrostatic contribution to the binding free energy of a simple intercalating ligand, 3,8-diamino-6-phenylphenanthridine, to DNA. We find that the nonlinear Poisson-Boltzmann model accurately describes both the absolute magnitude of the pKa shift of 3,8-diamino-6-phenylphenanthridine observed upon intercalation and its variation with bulk salt concentration. Since the pKa shift is directly related to the total electrostatic binding free energy of the charged and neutral forms of the ligand, the accuracy of the calculations implies that the electrostatic contributions to binding are accurately predicted as well. Based on our results, we have developed a general physical description of the electrostatic contribution to ligand-DNA binding in which the electrostatic binding free energy is described as a balance between the coulombic attraction of a ligand to DNA and the disruption of solvent upon binding. Long-range coulombic forces associated with highly charged nucleic acids provide a strong driving force for the interaction of cationic ligands with DNA. These favorable electrostatic interactions are, however, largely compensated for by unfavorable c...Continue Reading

References

Nov 1, 1992·Biophysical Journal·M ZachariasJ A McCammon
Jan 1, 1990·Annual Review of Biophysics and Biophysical Chemistry·K A Sharp, B Honig
Oct 20, 1989·Journal of Molecular Biology·J H HaM T Record
Oct 26, 1989·Nature·S E PhillipsP G Stockley
May 1, 1989·Biopolymers·B JayaramB Honig
Oct 1, 1989·Protein Engineering·A V Finkelstein, J Janin
Aug 5, 1985·Journal of Molecular Biology·M K GilsonB Honig
Jun 28, 1972·Biochemical and Biophysical Research Communications·S Arnott, D W Hukins
Jan 1, 1981·Biopolymers·R L Jones, W D Wilson
Apr 29, 1994·Journal of Molecular Biology·V K MisraB Honig
Apr 15, 1994·Structure·K Phillips, S E Phillips
Apr 29, 1994·Journal of Molecular Biology·V K MisraB Honig
May 25, 1993·Biochemistry·T G BurkeM E Wall

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Citations

Dec 17, 2009·Journal of Molecular Modeling·Katja Perdan-PirkmajerMojca Krzan
Sep 29, 2011·Journal of Molecular Modeling·Shaowen HuFrancis A Cucinotta
Aug 30, 1996·Biophysical Chemistry·K A Sharp
Apr 30, 2013·Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences·C Caramelo-NunesC T Tomaz
Jun 11, 2002·Journal of Molecular Biology·Graeme L ConnDavid E Draper
Jun 6, 2000·Advanced Drug Delivery Reviews·J T SparrowL C Smith
Nov 29, 1996·Biophysical Chemistry·T Härd, T Lundbäck
Sep 6, 2012·Chemical Research in Toxicology·Igor ShamovskyPeter Sjö
Sep 19, 2012·Proceedings of the National Academy of Sciences of the United States of America·Davit A Potoyan, Garegin A Papoian
May 23, 2007·The Journal of Biological Chemistry·Elizabeth J Fialcowitz-WhiteGerald M Wilson
Nov 20, 2002·Journal of Biomolecular Structure & Dynamics·Motilal MaitiRuma Nandi
Feb 25, 2014·The Journal of Chemical Physics·Robert C HarrisMarcia O Fenley
Dec 26, 2013·Journal of Photochemistry and Photobiology. B, Biology·Sarita Sarkar, Kakali Bhadra
Oct 25, 2001·Proceedings of the National Academy of Sciences of the United States of America·V K Misra, D E Draper
Jan 16, 2007·Journal of Molecular Biology·Christopher L TangBarry Honig
Mar 3, 2007·Proteins·Antonio MorrealeAngel R Ortiz
Nov 30, 2005·Journal of Structural Biology·M WojciechowskiM Baginski
Aug 5, 2010·Biophysical Journal·Marcia O FenleyAlexander H Boschitsch
Nov 25, 1998·Biophysical Journal·S Gavryushov, P Zielenkiewicz
May 14, 2004·Annual Review of Biophysics and Biomolecular Structure·B Jayaram, Tarun Jain
Dec 22, 1999·Journal of Molecular Biology·V K Misra, D E Draper
Jun 3, 2000·Journal of Molecular Biology·V K Misra, D E Draper
Jan 31, 2015·Organic & Biomolecular Chemistry·Harmanpreet Kaur PanesarThomas G Minehan
Apr 30, 2003·Biopolymers·Vinod K MisraDavid E Draper
Mar 21, 2008·Biopolymers·V V KostjukovM P Evstigneev
Apr 30, 2009·Biopolymers·V V KostjukovM P Evstigneev
Feb 11, 2010·Physical Chemistry Chemical Physics : PCCP·Witcha TreesuwanSimon P Mackay
Dec 18, 2008·Dalton Transactions : an International Journal of Inorganic Chemistry·Changlin Liu, Li Wang
Dec 2, 1998·Journal of Biomolecular Structure & Dynamics·G S Manning, J Ray

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