TY - JOUR
T1 - Molecular dynamics simulation of ribosome jam
AU - Matsumoto, Shigenori
AU - Takagi, Fumiko
AU - Shimada, Takashi
AU - Ito, Nobuyasu
N1 - KAUST Repository Item: Exported on 2020-10-01
Acknowledged KAUST grant number(s): KUK-I1-005-04
Acknowledgements: This work was partly supported by Award No. KUK-I1-005-04 made by King Abdullah University of Science and Technology (KAUST).
This publication acknowledges KAUST support, but has no KAUST affiliated authors.
PY - 2011/9
Y1 - 2011/9
N2 - We propose a coarse-grained molecular dynamics model of ribosome molecules to study the dependence of translation process on environmental parameters. We found the model exhibits traffic jam property, which is consistent with an ASEP model. We estimated the influence of the temperature and concentration of molecules on the hopping probability used in the ASEP model. Our model can also treat environmental effects on the translation process that cannot be explained by such cellular automaton models. © 2010 Elsevier B.V. All rights reserved.
AB - We propose a coarse-grained molecular dynamics model of ribosome molecules to study the dependence of translation process on environmental parameters. We found the model exhibits traffic jam property, which is consistent with an ASEP model. We estimated the influence of the temperature and concentration of molecules on the hopping probability used in the ASEP model. Our model can also treat environmental effects on the translation process that cannot be explained by such cellular automaton models. © 2010 Elsevier B.V. All rights reserved.
UR - http://hdl.handle.net/10754/598875
UR - https://linkinghub.elsevier.com/retrieve/pii/S0010465510004819
UR - http://www.scopus.com/inward/record.url?scp=79958089962&partnerID=8YFLogxK
U2 - 10.1016/j.cpc.2010.12.007
DO - 10.1016/j.cpc.2010.12.007
M3 - Article
SN - 0010-4655
VL - 182
SP - 1958
EP - 1960
JO - Computer Physics Communications
JF - Computer Physics Communications
IS - 9
ER -