2020
DOI: 10.1063/1.5132777
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Effect of temperature on transport properties of cysteine in water

Abstract: Molecular dynamics simulations have been performed to study the transport properties of the dilute solution of cysteine in water at different temperatures. Structural analysis of the system has been carried out using radial distribution functions between different atoms of the solvent and solute. The self-diffusion coefficients of the solute and solvent are estimated from the slope of the mean square displacement vs the time plot using Einstein’s equation and their binary diffusion coefficients from Darken’s r… Show more

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Cited by 16 publications
(11 citation statements)
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“…The Particle Mesh Ewald (PME) [42] was used for the long-range interactions with a 12.0Å non-bonded cut-off. The energy minimization was performed for 10,000 steps, using the conjugate gradient and line search algorithm [43,44]. The system was then equilibrated at 310 K for 10 ns with harmonically restrained heavy atoms taking 1 fs time step.…”
Section: Methodsmentioning
confidence: 99%
“…The Particle Mesh Ewald (PME) [42] was used for the long-range interactions with a 12.0Å non-bonded cut-off. The energy minimization was performed for 10,000 steps, using the conjugate gradient and line search algorithm [43,44]. The system was then equilibrated at 310 K for 10 ns with harmonically restrained heavy atoms taking 1 fs time step.…”
Section: Methodsmentioning
confidence: 99%
“…Energy minimization run removes the unwanted hindrances between the atoms in the system. Since this run is performed in 0 K temperature, the system chooses the local minimum energy state [19,20]. After energy minimization, the system was equilibrated at 310 K under the isothermalisochoric conditions for 10 ns with 1 fs time step [21,22].…”
Section: Methodsmentioning
confidence: 99%
“…The simulations were carried out in cubic simulation box under periodic boundary conditions (PBC). At first, to remove van der Waals bad contact and to obtain the minimum potential energy state, energy minimization of the system was carried out using Steepest-descent method taking 50 kJ/mole-nm force tolerance [22,23].…”
Section: Computational Detailsmentioning
confidence: 99%