- Abstract:
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We introduce an extended version of oxDNA, a coarse-grained model of deoxyribonucleic acid (DNA) designed to capture the thermodynamic, structural, and mechanical properties of single- and double-stranded DNA. By including explicit major and minor grooves and by slightly modifying the coaxial stacking and backbone-backbone interactions, we improve the ability of the model to treat large (kilobase-pair) structures, such as DNA origami, which are sensitive to these geometric features. Further, ...
Expand abstract - Publication status:
- Published
- Peer review status:
- Peer reviewed
- Version:
- Accepted Manuscript
- Files:
-
-
(pdf, 5.3MB)
-
- Publisher copy:
- 10.1063/1.4921957
-
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- Publisher:
- AIP Publishing Publisher's website
- Journal:
- The Journal of chemical physics Journal website
- Volume:
- 142
- Issue:
- 23
- Pages:
- 234901
- Publication date:
- 2015-06-05
- DOI:
- EISSN:
-
1089-7690
- ISSN:
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0021-9606
- URN:
-
uuid:241ae8d5-2092-4b24-b1d0-3fb7482b7bcd
- Source identifiers:
-
517512
- Local pid:
- pubs:517512
- Language:
- English
- Keywords:
- Copyright holder:
- AIP Publishing LLC
- Copyright date:
- 2015
- Notes:
- Copyright © 2015 AIP Publishing LLC.
Journal article
Introducing improved structural properties and salt dependence into a coarse-grained model of DNA.
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Engineering and Physical Sciences Research Council
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