Molecular dynamics simulation of ribosome jam

Shigenori Matsumoto, Fumiko Takagi, Takashi Shimada, Nobuyasu Ito

Research output: Contribution to journalArticlepeer-review

Abstract

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.
Original languageEnglish (US)
Pages (from-to)1958-1960
Number of pages3
JournalComputer Physics Communications
Volume182
Issue number9
DOIs
StatePublished - Sep 2011
Externally publishedYes

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