Coarse-grained simulations of DNA overstretching.
We use a recently developed coarse-grained model to simulate the overstretching of duplex DNA. Overstretching at 23 degrees C occurs at 74 pN in the model, about 6-7 pN higher than the experimental value at equivalent salt conditions. Furthermore, the model reproduces the temperature dependence of t...
| Príomhchruthaitheoirí: | , , , , |
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| Formáid: | Journal article |
| Teanga: | English |
| Foilsithe / Cruthaithe: |
American Institute of Physics
2013
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| _version_ | 1826269486770028544 |
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| author | Romano, F Chakraborty, D Doye, J Ouldridge, T Louis, A |
| author_facet | Romano, F Chakraborty, D Doye, J Ouldridge, T Louis, A |
| author_sort | Romano, F |
| collection | OXFORD |
| description | We use a recently developed coarse-grained model to simulate the overstretching of duplex DNA. Overstretching at 23 degrees C occurs at 74 pN in the model, about 6-7 pN higher than the experimental value at equivalent salt conditions. Furthermore, the model reproduces the temperature dependence of the overstretching force well. The mechanism of overstretching is always force-induced melting by unpeeling from the free ends. That we never see S-DNA (overstretched duplex DNA), even though there is clear experimental evidence for this mode of overstretching under certain conditions, suggests that S-DNA is not simply an unstacked but hydrogen-bonded duplex, but instead probably has a more exotic structure. |
| first_indexed | 2024-03-06T21:25:49Z |
| format | Journal article |
| id | oxford-uuid:430db1f3-25d6-4548-aaba-6abe5b029623 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-06T21:25:49Z |
| publishDate | 2013 |
| publisher | American Institute of Physics |
| record_format | dspace |
| spelling | oxford-uuid:430db1f3-25d6-4548-aaba-6abe5b0296232022-03-26T14:53:08ZCoarse-grained simulations of DNA overstretching.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:430db1f3-25d6-4548-aaba-6abe5b029623EnglishSymplectic Elements at OxfordAmerican Institute of Physics2013Romano, FChakraborty, DDoye, JOuldridge, TLouis, AWe use a recently developed coarse-grained model to simulate the overstretching of duplex DNA. Overstretching at 23 degrees C occurs at 74 pN in the model, about 6-7 pN higher than the experimental value at equivalent salt conditions. Furthermore, the model reproduces the temperature dependence of the overstretching force well. The mechanism of overstretching is always force-induced melting by unpeeling from the free ends. That we never see S-DNA (overstretched duplex DNA), even though there is clear experimental evidence for this mode of overstretching under certain conditions, suggests that S-DNA is not simply an unstacked but hydrogen-bonded duplex, but instead probably has a more exotic structure. |
| spellingShingle | Romano, F Chakraborty, D Doye, J Ouldridge, T Louis, A Coarse-grained simulations of DNA overstretching. |
| title | Coarse-grained simulations of DNA overstretching. |
| title_full | Coarse-grained simulations of DNA overstretching. |
| title_fullStr | Coarse-grained simulations of DNA overstretching. |
| title_full_unstemmed | Coarse-grained simulations of DNA overstretching. |
| title_short | Coarse-grained simulations of DNA overstretching. |
| title_sort | coarse grained simulations of dna overstretching |
| work_keys_str_mv | AT romanof coarsegrainedsimulationsofdnaoverstretching AT chakrabortyd coarsegrainedsimulationsofdnaoverstretching AT doyej coarsegrainedsimulationsofdnaoverstretching AT ouldridget coarsegrainedsimulationsofdnaoverstretching AT louisa coarsegrainedsimulationsofdnaoverstretching |