Blinking statistics of a molecular beacon triggered by end-denaturation of DNA
(2005) In Journal of Physics: Condensed Matter 17(49). p.4305-4316- Abstract
- We use a master equation approach based on the Poland–Scheraga free energy for DNA denaturation to investigate the (un)zipping dynamics of a denaturation wedge in a stretch of DNA that is clamped at one end. In particular, we quantify the blinking dynamics of a fluorophore–quencher pair mounted within the denaturation wedge. We also study the behavioural changes in the presence of proteins that selectively bind to single-stranded DNA. We show that such a set-up could be well suited as an easy-to-implement nanodevice for sensing environmental conditions in small volumes.
Please use this url to cite or link to this publication:
https://lup.lub.lu.se/record/9fec72ce-cd88-41ae-ba5e-f94297f6093c
- author
- Ambjörnsson, Tobias LU and Metzler, Ralf
- publishing date
- 2005-12-14
- type
- Contribution to journal
- publication status
- published
- subject
- in
- Journal of Physics: Condensed Matter
- volume
- 17
- issue
- 49
- pages
- 4305 - 4316
- publisher
- IOP Publishing
- external identifiers
-
- scopus:28544451982
- ISSN
- 0953-8984
- DOI
- 10.1088/0953-8984/17/49/022
- language
- English
- LU publication?
- no
- id
- 9fec72ce-cd88-41ae-ba5e-f94297f6093c
- date added to LUP
- 2019-05-03 11:43:32
- date last changed
- 2022-03-31 17:19:48
@article{9fec72ce-cd88-41ae-ba5e-f94297f6093c, abstract = {{We use a master equation approach based on the Poland–Scheraga free energy for DNA denaturation to investigate the (un)zipping dynamics of a denaturation wedge in a stretch of DNA that is clamped at one end. In particular, we quantify the blinking dynamics of a fluorophore–quencher pair mounted within the denaturation wedge. We also study the behavioural changes in the presence of proteins that selectively bind to single-stranded DNA. We show that such a set-up could be well suited as an easy-to-implement nanodevice for sensing environmental conditions in small volumes.}}, author = {{Ambjörnsson, Tobias and Metzler, Ralf}}, issn = {{0953-8984}}, language = {{eng}}, month = {{12}}, number = {{49}}, pages = {{4305--4316}}, publisher = {{IOP Publishing}}, series = {{Journal of Physics: Condensed Matter}}, title = {{Blinking statistics of a molecular beacon triggered by end-denaturation of DNA}}, url = {{http://dx.doi.org/10.1088/0953-8984/17/49/022}}, doi = {{10.1088/0953-8984/17/49/022}}, volume = {{17}}, year = {{2005}}, }