An interaction potential model has been developed, for the first time, for β-Cu Se using the ab initio derived data. The structure and elastic constants of β-Cu Se using the derived force-field are within a few percent of DFT derived structure and elastic constants and reported experimental structure. The derived force-field also shows remarkable ability to reproduce temperature dependent behavior of the specific heat and thermal expansion coefficient. The thermal structure evolution of the β-Cu Se is studied by performing the molecular dynamic simulations using the derived force-field. The simulation results demonstrate that the Cu ions moves around the equilibrium lattice position within the temperature range of 500-800 K. However, at a temperature > 800 K, the Cu ions starts diffusing within the material, while the Se ions remains in their lattice position. The evaluated thermodynamic properties such as free energy and excess entropy, show that the increased Cu-Se interaction with the temperature makes the system more thermodynamically stable. © 2017 Wiley Periodicals, Inc.
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J Chem Inf Model
January 2025
Donostia International Physics Center (DIPC), 20018 Donostia-San Sebastián, Spain.
Desalination of seawater by forward osmosis is a technology potentially able to address the global water scarcity problem. The major challenge limiting its widespread practical application is the design of a draw solute that can be separated from water by an energetically efficient process and then reused for the next cycle. Recent experiments demonstrate that a promising draw solute for forward-osmosis desalination is tetrabutylphosphonium 2,4,6-trimethylbenzenesulfonate ([P][TMBS]).
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January 2025
Thermodynamics Research Laboratory, School of Chemical Engineering, Iran University of Science and Technology, Tehran, 16846-13114, Iran.
This study investigates the pyrolysis mechanism of cellulose using reactive molecular dynamics simulations to prepare biochars for CO separation applications. Six biochars with densities ranging from 0.160 to 0.
View Article and Find Full Text PDFJ Comput Chem
January 2025
Laboratoire d'Optique et Biosciences (CNRS UMR7645, INSERM U1182), Ecole Polytechnique, Institut polytechnique de Paris, Palaiseau, France.
Folates comprise a crucial class of biologically active compounds related to folic acid, playing a vital role in numerous enzymatic reactions. One-carbon metabolism, facilitated by the folate cofactor, supports numerous physiological processes, including biosynthesis, amino acid homeostasis, epigenetic maintenance, and redox defense. Folates share a common pterin heterocyclic ring structure capable of undergoing redox reactions and existing in various protonation states.
View Article and Find Full Text PDFJ Mol Graph Model
March 2025
CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune 411008, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201 002, India. Electronic address:
Multi-scale models in which varying resolutions are considered in a single molecular dynamics simulation setup are gaining importance in integrative modeling. However, combining atomistic and coarse-grain resolutions, especially for coarse-grain force fields derived from top-down approaches, have not been well explored. In this study, we have implemented and tested a dual-resolution simulation approach to model globular proteins in atomistic detail (represented by the CHARMM36 model) with the surrounding solvent in Martini2 coarse-grain detail.
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December 2024
Department of Neurobiology and Acupuncture Research, The Third Clinical Medical College, Zhejiang Chinese Medical University, Hangzhou, 310053, PR China. Electronic address:
While technological advancements in treating electroplating wastewater continue, removing high concentrations of Ni and Co remains a challenge. Surface functionalization of clay has emerged as a pivotal approach for effectively removing heavy metals, rivaling intercalation modification in its effectiveness. This study investigated the adsorption performance and mechanisms of a phosphonate-modified layered double hydroxide material, employing batch experiments and simulation calculations to elucidate the impact of surface modification on adsorption behavior.
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