Short Order and Hydrogen Transport in Amorphous Palladium Materials

2009 ◽  
Vol 283-286 ◽  
pp. 149-154 ◽  
Author(s):  
E.A. Pastukhov ◽  
N.I. Sidorov ◽  
Valery A. Polukhin ◽  
V.P. Chentsov

Molecular dynamics simulation was used for investigating hydrogen migration in Pd-Si alloy at a temperature Т = 300 K. The strong affect of hydrogen dynamics and its defects creation to structure of palladium matrix is stated. The partial radial distribution function calculation for silicon specifies a preferable arrangement of silicon atoms relative to each other in the second coordination sphere. Model calculations have shown that not only silicon atoms can affect hydrogen mobility. Hydrogen itself also can significantly change the diffusion of the other components in the alloy.

Author(s):  
Juanfang Liu ◽  
Chao Liu ◽  
Qin Li

The flow properties and dynamical behavior of fluid in a nanochannel were investigated by nonequilibrium molecular dynamics simulation. First of all, the locale distribution of molecules in the channel is found to be strongly inhomogeneous compared to the bulk fluid. In the vicinity of the wall, portion of the fluid molecules are absorbed on the surface of wall due to the strong interaction of the atoms between the wall and liquid, so that the fluid density in the contact region would be much larger than one of the bulk fluid. But in the other region, the local density value approaches one of the bulk fluids with the increasing distance from the wall. This oscillatory behavior of density resulted in different motion behavior of molecules in the different region of nanochannel. The molecular behavior in the interfacial region is remarkably different from those of fluid atoms in the center of channel and wall atoms, which posses both the motion properties of bulk liquids and a solid atom. At the molecular level, macroscopic continuum hypothesis failed, that is, the results predicted by the Navier-Stoke equations deviate from the simulation data adopted by molecular dynamics simulation. In the paper, the velocity profiles for the channels with different width were plotted, which demonstrated that the time-averaged velocity profiles was not quadratic when the channel width was less than 10 molecular diameters. But on the other cases, the velocity profiles will agree well with the analytical solution based on the NS theory. The molecular dynamics simulation method can withdraw the important microscopical information from the simulation process, which benefit to analyze the flow mechanism at such length scale channel.


2000 ◽  
Vol 11 (05) ◽  
pp. 1067-1076
Author(s):  
ŞAKIR ERKOÇ ◽  
ŞENAY KATIRCIOĞLU

We have investigated the decomposition of C 60 molecules with low and high coverages on Si(100)(2×1) surface at elevated temperatures. We also investigated the decomposition of an isolated C 60 molecule. We employed molecular-dynamics simulation using a model potential. It has been found that C 60 decomposes on Si(100) surface after 1000 K in the case of low coverage (0.11), however in high coverage case (0.67), C 60 molecules decompose after 900 K. On the other hand, isolated C 60 molecule decomposes after 7500 K, interestingly it shows a phase change from 3D to 2D at higher temperatures.


Author(s):  
Pham Tri Dung ◽  
Nguyen Quang Bau ◽  
Nguyen Thi Thu Ha ◽  
Mai Thi Lan

The paper presents research results of structure of the Mullite system (3Al2O3.2SiO2) by  Molecular Dynamics simulation (MDs) using the Born–Mayer– Huggins pair interaction and periodic boundary conditions. The simulation is performed with model of 5250 atoms at different pressure and at 3500 K temperature. The structural properties of the system have been clarified through analysis of the pair radial distribution function, the distribution of coordination number, the bond angle and the link between adjacent TOx units.


2021 ◽  
Vol 12 (4) ◽  
pp. 5591-5600

In this study, Crocin, Digitoxigenin, Beta-Eudesmol, and Favipiravir were docked in the active site of SARS-CoV-2 main protease (PDB code: 6LU7). The docking study was followed by Molecular Dynamics simulation. The result indicates that Crocin and Digitoxigenin are the structures with the best affinity in the studied enzyme's binding site. Still, Molecular Dynamics simulation showed that Digitoxigenin is the molecule that fits better in the active site of the main protease. Therefore, this molecule could have a more potent antiviral treatment of COVID-19 than the other three studied compounds.


2015 ◽  
Vol 2015 ◽  
pp. 1-5 ◽  
Author(s):  
Julia A. Baimova ◽  
Qin Fan ◽  
Liangcai Zeng ◽  
Zhigang Wang ◽  
Sergey V. Dmitriev ◽  
...  

For carbon nanotubes of sufficiently large diameter at sufficiently low temperature, due to the action of the van der Waals forces, the ground state is a bilayer graphene with closed edges, the so-called collapsed configuration. Molecular dynamics simulation of collapsed carbon nanotubes is performed. The effect of length, diameter, and chirality of the nanotubes on their properties is investigated. It is shown that collapsed nanotubes after relaxation have rippled structure which is strongly dependent on the nanotube chirality. The structural properties are studied by calculating the radial distribution function and energy distribution along various regions in the collapsed carbon nanotubes.


Author(s):  
Yi Zhang ◽  
Liang Qiao ◽  
Junming Fan ◽  
Shifeng Xue ◽  
PY Ben Jar

Plastic deformation of polyethylene in uniaxial and biaxial loading conditions is studied using molecular dynamics simulation. Effects of tensile strain rates from 1 × 105 to 1 × 109 s−1, and mass density in the range of 0.923–0.926 g/cm3 on mechanical behaviour and microstructure evolution are examined. Two biaxial tensile deformation modes are considered. One is through simultaneous stretching in both the x and y directions and the other sequential stretching, firstly in the x-direction and then in the y-direction while strain in the x-direction remains constant. Tangent modulus and yield stress that are determined using the stress–strain curves from the molecular dynamics simulation show a strong dependence on the deformation mode, strain rate and mass density, and all are in good agreement with results from the experimental testing, including fracture behaviour which is ductile at a low strain rate but brittle at a high strain rate. Furthermore, the study suggests that the stress–strain curves under uniaxial tension and simultaneous biaxial tension at a relatively low strain rate contain four distinguishable regions, for elastic, yield, strain softening and strain hardening, respectively, whereas under sequential biaxial tension, stress increases monotonically with the increase of strain, without noticeable yielding, strain softening or strain hardening behaviour. The molecular dynamics simulation also suggests that an increase in the strain rate enhances the possibility of cavitation. Under simultaneous biaxial tension, with the strain rate increasing from 1 × 106 to 1 × 109 s−1, the molecular dynamics simulation shows that polyethylene failure changes from a local to a global phenomenon, accompanied by a decrease of the void size and increase of uniformity in the void distribution. Under sequential biaxial tension, on the other hand, the density of the cavities is clearly reduced.


Author(s):  
Aneet D. Narendra ◽  
Abhijit Mukherjee

Examination of metastable states of fluids provides important information pertinent to cavitation and homogeneous nucleation. Homogeneous nucleation, in particular, is an important topic of research. Molecular Dynamics simulation is a well-endorsed method to simulate metastabilitites, as they are limited to mesoscopic scales of length and time and this life-time is essentially zero on a laboratory time scale. In the present study, a molecular dynamics code has been used in conjunction with MOLDY to investigate phase change in a Lennard-Jones liquid. The Lennard-Jones atoms were subjected to different temperatures at various number densities and the pressure was recorded for each case. The appearance of a change of phase is characterized by the formation of clusters or formation of voids as described by the radial distribution function.


2021 ◽  
Vol 2021 ◽  
pp. 1-11
Author(s):  
Dongling Yu ◽  
Huiling Zhang ◽  
Jiaqi Yi ◽  
Yongzhen Fang ◽  
Nanxing Wu

To explore the deformation law of nanoindentation dislocations of different crystal plane groups of 3C-SiC by cube indenter. The molecular dynamics simulation method is used to construct the different crystal plane family models of 3C-SiC, select the ensemble, set the potential function, optimize the crystal structure, and relax the indentation process. The radial distribution function, shear strain, and dislocation deformation of nanoindentation on (001), (110), and (111) planes were analyzed, respectively. In the radial distribution function, the change in g r in the (110) crystal plane is the most obvious. Shear strain and dislocation occur easily at the boundary of square indentation defects. During the indentation process, the shear strain is enhanced along the atomic bond arrangement structure, (001) crystal plane shear strain is mainly concentrated around and below the indentation defects and produce a large number of cross dislocations, (110) the crystal plane shear strain is mainly concentrated in the shear strain chain extending around and below the indentation defect, which mainly produces horizontal dislocations, and (111) the crystal plane shear strain is mainly concentrated in four weeks extending on the left and right sides in the direction below the indentation defect and produces horizontal and vertical dislocations. The direction of shear stress release is related to the crystal structure. The crystal structure affects the direction of atomic slip, resulting in the results of sliding in different directions. The final dislocation rings are different, resulting in different indentation results.


2009 ◽  
Vol 97 (7) ◽  
Author(s):  
Magali Duvail ◽  
Paola D'Angelo ◽  
Marie-Pierre Gaigeot ◽  
Pierre Vitorge ◽  
Riccardo Spezia

AbstractIn this paper we show how molecular dynamics simulation can improve comprehension of structure and dynamics of water solvent around heavy cations. In particular, metal-water radial distribution function obtained from molecular dynamics can be used into EXAFS equation to improve the experimental signal fitting. Here we show results on structure and dynamics of Co


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