Simulations of interfacial processes: recent advances in force field development

S Dasetty, PJ Meza-Morales, RB Getman… - Current Opinion in …, 2019 - Elsevier
Interfacial systems are ubiquitous and important to myriad processes of interest such as
protein-protein interactions and catalysis of reactions. Investigating interfacial systems at the …

Computational design of a cyclic peptide that inhibits the CTLA4 immune checkpoint

R Thakkar, D Upreti, S Ishiguro, M Tamura… - RSC Medicinal …, 2023 - pubs.rsc.org
Proteins involved in immune checkpoint pathways, such as CTLA4, PD1, and PD-L1, have
become important targets for cancer immunotherapy; however, development of small …

Thermodynamics of adsorption on graphenic surfaces from aqueous solution

ER Azhagiya Singam, Y Zhang, G Magnin… - Journal of chemical …, 2018 - ACS Publications
Adsorption of organic molecules from aqueous solution to the surface of carbon nanotubes
or graphene is an important process in many applications of these materials. Here we use …

Molecular simulations of surfactant adsorption on iron oxide from hydrocarbon solvents

PN Acero, S Mohr, M Bernabei, C Fernández… - Langmuir, 2021 - ACS Publications
The performance of organic friction modifiers (OFMs) depends on their ability to adsorb onto
surfaces and form protective monolayers. Understanding the relationship between OFM …

Predicting the preferred morphology of hexagonal boron nitride domain structure on nickel from ReaxFF-based molecular dynamics simulations

S Liu, J Comer, ACT Van Duin, DM Van Duin, B Liu… - Nanoscale, 2019 - pubs.rsc.org
An understanding of the nucleation and growth of hexagonal boron nitride (hBN) on nickel
substrates is essential to its development as a functional material. In particular, fundamental …

Adsorption of amino acids on graphene: assessment of current force fields

S Dasetty, JK Barrows, S Sarupria - Soft Matter, 2019 - pubs.rsc.org
We compare the free energies of adsorption (ΔAads) and the structural preferences of amino
acids on graphene obtained using the non-polarizable force fields—Amberff99SB …

Catechol and its derivatives adhesion on graphene: insights from molecular dynamics simulations

Y Li, M Liao, J Zhou - The Journal of Physical Chemistry C, 2018 - ACS Publications
Understanding the interactions between aromatic compounds and organic surfaces is vital
for adhesion applications. In this work, molecular dynamics simulations are employed to …

Size Matters: Free-Energy Calculations of Amino Acid Adsorption over Pristine Graphene

M Barria-Urenda, A Ruiz-Fernandez… - Journal of Chemical …, 2023 - ACS Publications
There is still growing interest in graphene interactions with proteins, both for its possible
biological applications and due to concerns over detrimental effects at the cellular level. As …

Understanding the Adsorption and Diffusion Behaviors of PBUT in Biocompatible MOFs

J Hou, M Liu, W Gao, K Yan, B Li… - The Journal of …, 2024 - ACS Publications
With the increasing incidence of chronic kidney disease, the effective control of protein-
bound uremic toxins (PBUTs), which are difficult to remove through dialysis, has become a …

Design of Peptides that Fold and Self-Assemble on Graphite

J Legleiter, R Thakkar, A Velásquez-Silva… - Journal of Chemical …, 2022 - ACS Publications
The graphite–water interface provides a unique environment for polypeptides that generally
favors ordered structures more than in solution. Therefore, systems consisting of designed …