Surface conductivity (SC) has been demonstrated to be a valuable parameter for the characterization of surface-bound polyelectrolyte layers (PLs). The measurement of the SC in dependence of the pH and solution concentration yields information about the Donnan potential, PsiD, the intrinsic charge, the potential of the PL electrolyte interface, Psi0, the pK of the ionizable groups within the PLs, and the concentration of segments, n. We discuss herein that SC measurements may additionally provide information about counterion condensation. The mobility of the counterions within grafted poly(acrylic acid) (PAA) layers was estimated from the density of COOH groups and SC data to be only 14% of that of free ions (Zimmermann, et al. Langmuir 2005, 21, 5108). In view of this large deviation and the limited sterical constraints within the brushes, we conclude that the number of freely moving counterions is decreased due to counterion condensation. This interpretation agrees well with the measurement of the osmotic pressure for PAA solution (Boisvert, et al. Polymer 2002, 43, 141), which can be exclusively attributed to the remaining mobile counterions of the polyelectrolyte.
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http://dx.doi.org/10.1021/jp065585j | DOI Listing |
J Chem Phys
December 2024
Department of Biomedical Engineering, Northwestern University, Evanston, Illinois 60208, USA.
We theoretically investigate how the intranuclear environment influences the charge of a nucleosome core particle (NCP)-the fundamental unit of chromatin consisting of DNA wrapped around a core of histone proteins. The molecular-based theory explicitly considers the size, shape, conformation, charge, and chemical state of all molecular species-thereby linking the structural state with the chemical/charged state of the system. We investigate how variations in monovalent and divalent salt concentrations, as well as pH, affect the charge distribution across different regions of an NCP and quantify the impact of charge regulation.
View Article and Find Full Text PDFJ Phys Chem B
December 2024
University of Maryland Computer-Aided Drug Design Center, Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland, Baltimore, Maryland 21201, United States.
An accurate force field (FF) is the foundation of reliable results from molecular dynamics (MD) simulations. In our recently published work, we developed a protocol to generate atom pair-specific Lennard-Jones (known as NBFIX in CHARMM) and through-space Thole dipole screening (NBTHOLE) parameters in the context of the Drude polarizable FF based on readily accessible quantum mechanical (QM) data to fit condensed phase experimental thermodynamic benchmarks, including the osmotic pressure, diffusion coefficient, ionic conductivity, and solvation free energy, when available. In the present work, the developed protocol is applied to generate NBFIX and NBTHOLE parameters for interactions between monatomic ions (specifically Li, Na, K, Rb, Cs, and Cl) and common functional groups found in proteins and nucleic acids.
View Article and Find Full Text PDFElectrophoresis
November 2024
Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, Prague, Czech Republic.
bioRxiv
November 2024
Department of Biomedical Engineering, Northwestern University, Evanston, IL 60208, USA.
We theoretically investigate how the intranuclear environment influences the charge of a nucleosome core particle (NCP) - the fundamental unit of chromatin consisting of DNA wrapped around a core of histone proteins. The molecular-based theory explicitly considers the size, shape, conformations, charges, and chemical states of all molecular species - thereby linking the structural state with the chemical/charged state of the system. We investigate how variations in monovalent and divalent salt concentrations, as well as pH, affect the charge distribution across different regions of an NCP and quantify the impact of charge regulation.
View Article and Find Full Text PDFBiomolecules
November 2024
Institut für Chemie und Biochemie, Freie Universität Berlin, Forschungsbau SupraFab, Altensteinstrasse 23a, 14195 Berlin, Germany.
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