Simulating a burnt-bridges DNA motor with a coarse-grained DNA model
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 demonstr...
| Main Authors: | , , , , |
|---|---|
| Format: | Journal article |
| Language: | English |
| Published: |
Springer Netherlands
2012
|
| _version_ | 1826286595462922240 |
|---|---|
| author | Sulc, P Ouldridge, T Romano, F Doye, J Louis, A |
| author_facet | Sulc, P Ouldridge, T Romano, F Doye, J Louis, A |
| author_sort | Sulc, P |
| collection | OXFORD |
| description | 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. |
| first_indexed | 2024-03-07T01:46:04Z |
| format | Journal article |
| id | oxford-uuid:9876947c-ee6c-4c6d-9c93-52b8aa16245e |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T01:46:04Z |
| publishDate | 2012 |
| publisher | Springer Netherlands |
| record_format | dspace |
| spelling | oxford-uuid:9876947c-ee6c-4c6d-9c93-52b8aa16245e2022-03-27T00:07:09ZSimulating a burnt-bridges DNA motor with a coarse-grained DNA modelJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:9876947c-ee6c-4c6d-9c93-52b8aa16245eEnglishSymplectic Elements at OxfordSpringer Netherlands2012Sulc, POuldridge, TRomano, FDoye, JLouis, AWe 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. |
| spellingShingle | Sulc, P Ouldridge, T Romano, F Doye, J Louis, A Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title | Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title_full | Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title_fullStr | Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title_full_unstemmed | Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title_short | Simulating a burnt-bridges DNA motor with a coarse-grained DNA model |
| title_sort | simulating a burnt bridges dna motor with a coarse grained dna model |
| work_keys_str_mv | AT sulcp simulatingaburntbridgesdnamotorwithacoarsegraineddnamodel AT ouldridget simulatingaburntbridgesdnamotorwithacoarsegraineddnamodel AT romanof simulatingaburntbridgesdnamotorwithacoarsegraineddnamodel AT doyej simulatingaburntbridgesdnamotorwithacoarsegraineddnamodel AT louisa simulatingaburntbridgesdnamotorwithacoarsegraineddnamodel |