Recent applications of Kirkwood–Buff theory to biological systems

V Pierce, M Kang, M Aburi, S Weerasinghe… - Cell biochemistry and …, 2008 - Springer
The effect of cosolvents on biomolecular equilibria has traditionally been rationalized using
simple binding models. More recently, a renewed interest in the use of Kirkwood–Buff (KB) …

A practical guide on how osmolytes modulate macromolecular properties

D Harries, J Rösgen - Methods in cell biology, 2008 - Elsevier
Osmolytes are a class of compounds ubiquitously used by living organisms to respond to
cellular stress or to fine-tune molecular properties in the cell. These compounds are also …

A Kirkwood− Buff derived force field for mixtures of urea and water

S Weerasinghe, PE Smith - The Journal of Physical Chemistry B, 2003 - ACS Publications
A new nonpolarizable force field for mixtures of urea and water is described. The model was
parametrized to reproduce the experimental Kirkwood− Buff integrals between urea− urea …

Aqueous urea solutions: structure, energetics, and urea aggregation

MC Stumpe, H Grubmüller - The Journal of Physical Chemistry B, 2007 - ACS Publications
Urea is ubiquitously used as a protein denaturant. To study the structure and energetics of
aqueous urea solutions, we have carried out molecular dynamics simulations for a wide …

A Kirkwood–Buff derived force field for sodium chloride in water

S Weerasinghe, PE Smith - The Journal of chemical physics, 2003 - pubs.aip.org
A force field for the simulation of mixtures of sodium chloride and water is described. The
model is specifically designed to reproduce the experimentally determined Kirkwood–Buff …

Structural thermodynamics of protein preferential solvation: osmolyte solvation of proteins, aminoacids, and peptides

M Auton, DW Bolen, J Rösgen - Proteins: Structure, Function …, 2008 - Wiley Online Library
Protein stability and solubility depend strongly on the presence of osmolytes, because of the
protein preference to be solvated by either water or osmolyte. It has traditionally been …

Quantitative assessments of the distinct contributions of polypeptide backbone amides versus side chain groups to chain expansion via chemical denaturation

AS Holehouse, K Garai, N Lyle, A Vitalis… - Journal of the …, 2015 - ACS Publications
In aqueous solutions with high concentrations of chemical denaturants such as urea and
guanidinium chloride (GdmCl) proteins expand to populate heterogeneous conformational …

Convergence of Kirkwood–Buff integrals of ideal and nonideal aqueous solutions using molecular dynamics simulations

J Milzetti, D Nayar… - The Journal of Physical …, 2018 - ACS Publications
The computation of Kirkwood–Buff integrals (KBIs) using molecular simulations of closed
systems is challenging due to finite system-size effects. One of the problems involves the …

Kirkwood–Buff derived force field for mixtures of acetone and water

S Weerasinghe, PE Smith - The Journal of chemical physics, 2003 - pubs.aip.org
The ability to accurately reproduce the properties of different solutes in water using computer
simulation will provide an increased understanding of the thermodynamics and properties of …

A Kirkwood− Buff derived force field for methanol and aqueous methanol solutions

S Weerasinghe, PE Smith - The Journal of Physical Chemistry B, 2005 - ACS Publications
A force field for the simulation of methanol and aqueous methanol mixtures is presented.
The force field was specifically designed to reproduce the experimental Kirkwood− Buff …