scholarly journals Computer simulations of cyclic and acyclic cholinergic agonists: conformational search and molecular dynamics simulations

1994 ◽  
Vol 66 (2) ◽  
pp. 314-324 ◽  
Author(s):  
K.A. McGroddy ◽  
J.W. Brady ◽  
R.E. Oswald
1994 ◽  
Vol 9 (3) ◽  
pp. 548-552 ◽  
Author(s):  
C.S. Becquart ◽  
P.C. Clapp ◽  
J.A. Rifkin

Using molecular dynamics computer simulations and interatomic potentials derived partly by Voter and Chen1 and Rifkin et al.,2 we studied the surface reconstruction taking place on free surfaces of arrays of RuAl. Surface reconstruction appears to be very important on {111} and {110} types of planes and almost nonexistent on {100} type of planes. Cracks oriented so that their crack planes were either {111} types or {110} types exhibit on their internal free surface important surface reconstruction. It is believed that this effect may have some contribution in the brittle versus ductile behavior of the crack.


2012 ◽  
Vol 733 ◽  
pp. 183-189 ◽  
Author(s):  
Dušan Račko

In this contribution a generalized picture of the cavity number behavior is obtained by means of molecular dynamics simulations and consequent free volume analysis. The cavity number obtained for free volume cavities defined by different probe radii shows a complex behavior with the temperature. The number of cavities determined by small probes drops with the temperature. The number of cavities determined by large probes increases. This complex behavior of the cavity number can be discussed with the distinct behavior of the relative intensity, as observed in the experiment, and a support for the most basic of assumptions, that the cavity number relates to the relative intensity, is given.


RSC Advances ◽  
2014 ◽  
Vol 4 (57) ◽  
pp. 30215-30220 ◽  
Author(s):  
Wen-de Tian ◽  
Kang Chen ◽  
Yu-qiang Ma

Coarse-grained molecular dynamics simulations were employed to study the fullerene polymers with various functionalization degrees interacting with the DPPC membrane. Structure, dynamics, and thermodynamics of systems were analyzed.


Atoms ◽  
2021 ◽  
Vol 9 (1) ◽  
pp. 9
Author(s):  
Marco A. Gigosos ◽  
Roberto C. Mancini ◽  
Juan M. Martín-González ◽  
Ricardo Florido

Analysis of Stark-broadened spectral line profiles is a powerful, non-intrusive diagnostic technique to extract the electron density of high-energy-density plasmas. The increasing number of applications and availability of spectroscopic measurements have stimulated new research on line broadening theory calculations and computer simulations, and their comparison. Here, we discuss a comparative study of Stark-broadened line shapes calculated with computer simulations using non-interacting and interacting particles, and with the multi-electron radiator line shape MERL code. In particular, we focus on Ar K-shell X-ray line transitions in He- and H-like ions, i.e., Heα, Heβ and Heγ in He-like Ar and Lyα, Lyβ and Lyγ in H-like Ar. These lines have been extensively used for X-ray spectroscopy of Ar-doped implosion cores in indirect- and direct-drive inertial confinement fusion (ICF) experiments. The calculations were done for electron densities ranging from 1023 to 3×1024 cm−3 and a representative electron temperature of 1 keV. Comparisons of electron broadening only and complete line profiles including electron and ion broadening effects, as well as Doppler, are presented. Overall, MERL line shapes are narrower than those from independent and interacting particles computer simulations performed at the same conditions. Differences come from the distinctive treatments of electron broadening and are more pronounced in α line transitions. We also discuss the recombination broadening mechanism that naturally emerges from molecular dynamics simulations and its influence on the line shapes. Furthermore, we assess the impact of employing either molecular dynamics or MERL line profiles on the diagnosis of core conditions in implosion experiments performed on the OMEGA laser facility.


1985 ◽  
Vol 63 ◽  
Author(s):  
Uzi Landman ◽  
R. N. Barnett ◽  
C. L. Cleveland ◽  
W. D. Luedtke ◽  
M. W. Ribarsky ◽  
...  

ABSTRACTComputer simulations open new avenues in investigations of complex material systems and phenomena. The methodology, development and applications of molecular dynamics simulations are discussed and the wealth of microscopic information revealed via simulations of interphase-interfaces, liquid metals, metallic glasses and small aggregates are demonstrated.


2004 ◽  
Vol 76 (1) ◽  
pp. 197-202 ◽  
Author(s):  
A. Borodin ◽  
M. Kiselev

Molecular dynamics simulations of porphyrazine monolayers at the air-water interface have been carried out. All possible molecular orientations found by analysis of the π-A isotherms are reproduced by computer simulations. The existence of "guest-water" molecules has been observed in the simulation; this confirms the assumptions of experimentalists concerning this phenomenon.


2015 ◽  
Vol 13 (6) ◽  
pp. 1673-1679 ◽  
Author(s):  
Marilia T. C. Martins-Costa ◽  
Francisco F. García-Prieto ◽  
Manuel F. Ruiz-López

Computer simulations show that solvation effects at the air–water interface significantly influence the chemistry of aldehydes, enhancing for instance the benzaldehyde photolysis rate constant by one order of magnitude.


Soft Matter ◽  
2018 ◽  
Vol 14 (17) ◽  
pp. 3232-3235 ◽  
Author(s):  
Yu. D. Gordievskaya ◽  
Yu. A. Budkov ◽  
E. Yu. Kramarenko

The effect of an interplay between electrostatic and excluded volume interactions on the conformational behavior of a dipolar chain has been studied theoretically and by means of molecular dynamics simulations.


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