The effect of the initial temperature, pressure, and shape of carbon nanopores on the separation process of SiO2 molecules from water vapor by molecular dynamics simulation

Today, with the advancement of science in nanotechnology, it is possible to remove dust nanostructures from the air breathed by humans or other fluids. In the present study, the separation of SiO2 molecules from H2O vapor is studied using molecular dynamics (MD) simulation. This research studied the effect of initial temperature, nanopore geometry, and initial pressure on the separation of SiO2 molecules. The obtained results show that by increasing the temperature to 500 K, the maximum velocity (Max-Vel) of the samples reached 2.47 Å/fs. Regarding the increasing velocity of particles, more particles pass via the nanopores. Moreover, the shape of the nanopore could affect the number of passing particles. The results show that in the samples with a cylindrical nanopore, 20 and 40% of SiO2 molecules, and with the sphere cavity, about 32 and 38% of SiO2 particles passed in the simulated structure. So, it can be concluded that the performance of carbon nanosheets with a cylindrical pore and 450 K was more optimal. Also, the results show that an increase in initial pressure leads to a decrease in the passage of SiO2 particles. The results reveal that about 14 and 54% of Silica particles passed via the carbon membrane with increasing pressure. Therefore, for use in industry, in terms of separating dust particles, in addition to applying an EF, temperature, nanopore geometry, and initial pressure should be controlled.

The numerical study of pressure and temperature effects on mechanical properties of baghdadite-based nanostructure: molecular dynamics simulation

Bioceramics have been commonly implemented to replace and restore hard tissues such as teeth and bones in recent years. Among different bioceramics, Baghdadite (BAG) has high bioactivity due to its ability to form apatite and stimulate cell proliferation. So, this structure is used widely for medical applications to treat bone-based diseases. Physically, we expect changes in temperature and pressure to affect the Baghdadite-based nanostructure's mechanical behaviour. So, in this computational study, we report the pressure/temperature effect on Baghdadite matrix with nanoscale size by using Molecular Dynamics (MD) approach. To this end, physical values like the total energy, temperature, final strength (FS), stress-strain curve, potential energy, and Young's modulus (YM) are reported. Simulation results indicated the mechanical properties of Baghdadite (BAG) nanostructure weakened by temperature and pressure increase. Numerically, the FS and YM of the defined structure reach 131.40 MPa/159.43 MPa, and 115.15 MPa/139.72 MPa with temperature/pressure increasing. Therefore, the increase in initial pressure and temperature leads to a decrease in the mechanical properties of nanostructures. These results indicate the importance of the initial condition in the Baghdadite-based nanostructures' mechanical behaviour that must be considered in clinical applications.

The study of boron-nitride nanotube behavior as an atomic nano-pump for biomedicine applications

Complex physical and chemical interactions take place in drug delivery using nanotube structures. Various descriptions of the ultrastructural arrangement to various nanotube design features ranging from geometries to surface modifications on the nano levels have been put forward. In this work, molecular dynamics simulations were applied to understand the boron nitride nanotube (BNNT) performance for drug delivery applications. Here, we have carried out the molecular dynamic (MD) simulation using the Tersoff force field to obtaining optimum performance of BNNT and fullerene molecules for the first time. The result of the equilibrated system accomplished excellent stability of BNNT during MD simulation, which proves the appropriateness of chosen force field. Furthermore, to describe the BNNT nano pumping process, we have calculated the fullerene molecule's velocity and translational/rotational kinetic energy. Numerically, by increasing simulated structures' temperature from 275 to 350 K, the nano pumping time varies from 9.31 to 8.55 ps. Moreover, the outcoming results indicate that atomic wave production in BNNT is an essential parameter for the nano pumping process. Therefore, with the help of the simulation result, we succeed in decreasing the nano pumping time to 7.79 ps by adjusting the nano pumping process parameters. Our study revealed the molecular-level dispersion mechanism of BNNT as a drug delivery tool. Concerning the medical applications of fullerenes as drug molecules, including antiviral activity, antioxidant activity, and drug delivery use, the current study can shed light on the understanding of the dispersion of nanotubes to optimize the process for several biomedical applications.

Thermal and hydrodynamic properties of coronavirus at various temperature and pressure via molecular dynamics approach

COVID-19 is an epidemic virus arising from a freshly discovered coronavirus. Most people involved with the coronavirus will experience slight to moderate respiratory disease and recover without needing particular therapy. In this work, the atomic stability of the coronavirus at different thermodynamic properties such as temperature and pressure, was studied. For this purpose, the manner of this virus by atomic precession was described with a molecular dynamics approach. For the atomic stability of coronavirus description, physical properties such as temperature, total energy, volume variation, and atomic force of this structure were reported. In molecular dynamics approach, coronavirus is precisely simulated via S, O, N, and C atoms and performed Dreiding force field to describe these atoms interaction in the virus. Simulation results show that coronavirus stability has reciprocal relation with atomic temperature and pressure. Numerically, after 2.5 ns simulation, the potential energy varies from - 31,163 to - 26,041 eV by temperature changes from 300 to 400 K. Furthermore, this physical parameter decreases to - 28,045 eV rate at 300 K and 2 bar pressure. The volume of coronavirus is another crucial parameter to the stability description of this structure. The simulation shows that coronavirus volume 92% and 14% increases by 100 K and 2 bar variation of simulation temperature and pressure, respectively.

Molecular dynamics performance for coronavirus simulation by C, N, O, and S atoms implementation dreiding force field: drug delivery atomic interaction in contact with metallic Fe, Al, and steel

Coronavirus causes some illnesses to include cold, COVID-19, MERS, and SARS. This virus can be transmitted through contact with different atomic matrix between humans. So, this atomic is essential in medical cases. In this work, we describe the atomic manner of this virus in contact with various metallic matrix such as Fe, Al, and steel with equilibrium molecular dynamic method. For this purpose, we reported physical properties such as temperature, total energy, distance and angle of structures, mutual energy, and volume variation of coronavirus. In this approach, coronavirus is precisely simulated by O, C, S, and N atoms and they are implemented dreiding force field. Our simulation shows that virus interaction with steel matrix causes the maximum removing of the virus from the surfaces. After 1 ns, the atomic distance between these two structures increases from 45 to 75 Å. Furthermore, the volume of coronavirus 14.62% increases after interaction with steel matrix. This atomic manner shows that coronavirus removes and destroyed with steel surface, and this metallic structure can be a promising material for use in medical applications.

Calculation of the thermal conductivity of human serum albumin (HSA) with equilibrium/non-equilibrium molecular dynamics approaches

BACKGROUND AND OBJECTIVE

Human serum albumin (HSA) controls the flow of numerous chemical structures and molecules in the cardiovascular system. So, thermal conductivity of this atomic compound is important in medicinal applications.

METHODS

In this work, the thermal conductivity of HSA is calculated with equilibrium/non-equilibrium molecular dynamic approaches. In these methods each HSA molecule is exactly represented by C, N, O and S atoms and their implemented dreiding potential. Finally by using Green-Kubo and Fourier's law the thermal conductivity of HSA/H₂O mixture is calculated.

RESULTS

Our calculated rates for thermal conductivity via equilibrium/non-equilibrium molecular dynamics methods are 0.496 W/m K and 0.448 W/m K, respectively. The calculated thermal conductivity for this structure was very close to the thermal conductivity calculated for water molecules which were reported by other research groups. Furthermore our simulated structures show that thermal conductivity of HAS/H₂O mixtures has inverse relation with HAS molecules numbers and temperature of simulated atomic structures.

CONCLUSIONS

Comparing thermal conductivity from equilibrium/non-equilibrium molecular dynamics methods for HAS/H₂O shows that EMD and NEMD results are reliable and EMD calculated results are higher than NEMD results.

Investigation of thermal properties of DNA structure with precise atomic arrangement via equilibrium and non-equilibrium molecular dynamics approaches

BACKGROUND AND OBJECTIVE

Thermal conductivity of Deoxyribonucleic acid molecules is important for nanotechnology applications. Theoretical simulations based on simple models predict thermal conductivity for these molecular structures.

METHODS

In this work, we calculate the thermal properties of Deoxyribonucleic acid with precise atomic arrangement via equilibrium and non-equilibrium molecular dynamics approaches. In these methods, each Deoxyribonucleic acid molecule is represented by C, N, O, and P atoms and implemented dreidng potential to describe their atomic interactions.

RESULTS

Our calculated rate for thermal conductivity via equilibrium and non-equilibrium molecular dynamics methods is 0.381 W/m K and 0.373 W/m K, respectively. By comparing results from these two methods, it was found that the results from equilibrium and non-equilibrium molecular dynamics methods are identical, approximately. On the other hand, the number of DNA molecules and the equilibrium temperature of the simulated structures were important factors in their thermal conductivity rates, and their thermal conductivity was calculated at 0.323 W/m K-0.381 W/m K intervals for equilibrium and 0.303 W/m K-0.373 W/m K interval for non-equilibrium calculations.

CONCLUSIONS

These results are in good agreement with thermal conductivity calculation with other research groups.