Literature DB >> 19681588

A Kirkwood-Buff derived force field for thiols, sulfides, and disulfides.

Nikolaos Bentenitis1, Nicholas R Cox, Paul E Smith.   

Abstract

A force field has been developed for molecular simulations of methanethiol, dimethyl sulfide, and dimethyl disulfide mixtures. The force field specifically attempts to balance the solvation and self-association of these solutes in solution mixtures with methanol. The force field is based on the Kirkwood-Buff (KB) theory of solutions and is parametrized using the KB integrals obtained from the experimental activity coefficients for the solution mixtures. The transferability of the force field was tested and confirmed by the accurate prediction of the activity coefficients for methanethiol/dimethyl sulfide solutions, which were not used in the initial parametrization of the force fields. The ideality of this latter solution is excellently reproduced. The applicability of the force field to simulations in water was corroborated with a reasonably accurate prediction for the low solubility of dimethyl sulfide in water. The aggregation of methanol molecules at low methanol mole fractions displayed by all the mixtures is reproduced and further analyzed.

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Year:  2009        PMID: 19681588      PMCID: PMC3141228          DOI: 10.1021/jp904806f

Source DB:  PubMed          Journal:  J Phys Chem B        ISSN: 1520-5207            Impact factor:   2.991


  7 in total

1.  A Kirkwood-Buff derived force field for the simulation of aqueous guanidinium chloride solutions.

Authors:  Samantha Weerasinghe; Paul E Smith
Journal:  J Chem Phys       Date:  2004-08-01       Impact factor: 3.488

2.  A Kirkwood-Buff derived force field for methanol and aqueous methanol solutions.

Authors:  Samantha Weerasinghe; Paul E Smith
Journal:  J Phys Chem B       Date:  2005-08-11       Impact factor: 2.991

3.  Transferable potentials for phase equilibria. 8. United-atom description for thiols, sulfides, disulfides, and thiophene.

Authors:  Nusrat Lubna; Ganesh Kamath; Jeffrey J Potoff; Neeraj Rai; J Ilja Siepmann
Journal:  J Phys Chem B       Date:  2005-12-22       Impact factor: 2.991

Review 4.  Recent applications of Kirkwood-Buff theory to biological systems.

Authors:  Veronica Pierce; Myungshim Kang; Mahalaxmi Aburi; Samantha Weerasinghe; Paul E Smith
Journal:  Cell Biochem Biophys       Date:  2007-11-28       Impact factor: 2.194

5.  On the Kirkwood-Buff inversion procedure.

Authors:  Paul E Smith
Journal:  J Chem Phys       Date:  2008-09-28       Impact factor: 3.488

6.  Transverse-current autocorrelation-function calculations of the shear viscosity for molecular liquids.

Authors: 
Journal:  Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics       Date:  1994-01

7.  A Kirkwood-Buff derived force field for amides.

Authors:  Myungshim Kang; Paul E Smith
Journal:  J Comput Chem       Date:  2006-10       Impact factor: 3.376

  7 in total
  9 in total

1.  A Kirkwood-Buff force field for the aromatic amino acids.

Authors:  Elizabeth A Ploetz; Paul E Smith
Journal:  Phys Chem Chem Phys       Date:  2011-09-19       Impact factor: 3.676

2.  Kirkwood-Buff integrals for ideal solutions.

Authors:  Elizabeth A Ploetz; Nikolaos Bentenitis; Paul E Smith
Journal:  J Chem Phys       Date:  2010-04-28       Impact factor: 3.488

3.  Kirkwood-Buff analysis of aqueous N-methylacetamide and acetamide solutions modeled by the CHARMM additive and Drude polarizable force fields.

Authors:  Bin Lin; Pedro E M Lopes; Benoît Roux; Alexander D MacKerell
Journal:  J Chem Phys       Date:  2013-08-28       Impact factor: 3.488

4.  Osmotic Pressure Simulations of Amino Acids and Peptides Highlight Potential Routes to Protein Force Field Parameterization.

Authors:  Mark S Miller; Wesley K Lay; Adrian H Elcock
Journal:  J Phys Chem B       Date:  2016-04-21       Impact factor: 2.991

5.  Kirkwood-Buff integrals for hard-core Yukawa fluids.

Authors:  Han-Fei Chen; Jiang-Tao Li; Fang Gu; Hai-Jun Wang
Journal:  Eur Phys J E Soft Matter       Date:  2017-11-03       Impact factor: 1.890

6.  A Kirkwood-Buff Derived Force Field for Aqueous Alkali Halides.

Authors:  Moon Bae Gee; Nicholas R Cox; Yuanfang Jiao; Nikolaos Bentenitis; Samantha Weeerasinghe; Paul E Smith
Journal:  J Chem Theory Comput       Date:  2011-04-26       Impact factor: 6.006

7.  Developing Force Fields from the Microscopic Structure of Solutions.

Authors:  Elizabeth A Ploetz; Nikolaos Bentenitis; Paul E Smith
Journal:  Fluid Phase Equilib       Date:  2010-03-25       Impact factor: 2.775

8.  Reparameterization of Solute-Solute Interactions for Amino Acid-Sugar Systems Using Isopiestic Osmotic Pressure Molecular Dynamics Simulations.

Authors:  Wesley K Lay; Mark S Miller; Adrian H Elcock
Journal:  J Chem Theory Comput       Date:  2017-04-28       Impact factor: 6.006

9.  A comparative Kirkwood-Buff study of aqueous methanol solutions modeled by the CHARMM additive and Drude polarizable force fields.

Authors:  Bin Lin; Xibing He; Alexander D MacKerell
Journal:  J Phys Chem B       Date:  2013-08-29       Impact factor: 2.991

  9 in total

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