Title :
A conceptual modelling for combining potentials in both coarse grain and fine grain sugar molecules
Author :
Damoah, Dominic ; Agyemang, Brighter ; Ansong, Edward ; Goga, Nicolae ; Marrink, Siewert
Author_Institution :
Dept. of Comput. Sci., Valley View Univ., Accra-Ghana, Ghana
Abstract :
The use of computers for experiment has offered the ability to study the behavior of substances at the microscopic level providing understanding into the physical phenomena we face. This has raised questions on resources and the mechanisms that are employed to provide effective analysis of simulation results. In view of this, various approaches in addressing these challenges have been experimented with which coarse-graining is a major factor. Coarse-grain simulations reduces the detail level of simulations but offers larger time steps and required properties, among other merits, in the modeling of complex structures like carbohydrates. This research paper provides a conceptual model whereby the potentials that result from coarse grain and fine grain simulations can be combined using the theories of multi-scaling. A demonstration of the simulation of sucrose, a carbohydrate, is provided using the martini force field for the simulation process.
Keywords :
chemical engineering computing; digital simulation; sugar; carbohydrates; coarse grain sugar molecule; coarse-grain simulations; complex structure modeling; conceptual modelling; fine grain sugar molecule; martini force field; microscopic level; physical phenomena; sucrose simulation; Biological system modeling; Computational modeling; Computers; Force; Heuristic algorithms; Mathematical model; Sugar; Fine grain; Forecfield) Coarse grain; GROMACS; Multiscalling; Radial Distribution Function(RDF);
Conference_Titel :
Computer Communication and Systems, 2014 International Conference on
Print_ISBN :
978-1-4799-3671-7
DOI :
10.1109/ICCCS.2014.7068173