Simulating a burnt-bridges DNA motor with a coarse-grained DNA model
File(s)1212.4536v1.pdf (695.63 KB)
Accepted version
Author(s)
Šulc, P
Ouldridge, TE
Romano, F
Doye, JPK
Louis, AA
Type
Journal Article
Abstract
We apply a recently-developed coarse-grained model of DNA, designed to capture the basic physics of nanotechnological DNA systems, to the study of a ‘burnt-bridges’ DNA motor consisting of a single-stranded cargo that steps processively along a track of single-stranded stators. We demonstrate that the model is able to simulate such a system, and investigate the sensitivity of the stepping process to the spatial separation of stators, finding that an increased distance can suppress successful steps due to the build up of unfavourable tension. The mechanism of suppression suggests that varying the distance between stators could be used as a method for improving signal-to-noise ratios for motors that are required to make a decision at a junction of stators.
Date Issued
2014-01-01
Date Acceptance
2013-08-30
Citation
Natural Computing, 2014, 13 (4), pp.535-547
ISSN
1567-7818
Publisher
Springer
Start Page
535
End Page
547
Journal / Book Title
Natural Computing
Volume
13
Issue
4
Copyright Statement
© 2013, Springer Science+Business Media Dordrecht. The final publication is available at Springer via https://dx.doi.org/10.1007/s11047-013-9391-8
Publication Status
Published