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Nucleic acid base analog fret-pair facilitating detailed structural measurements in nucleic acid containing systems

Nucleic acid base analog fret-pair facilitating detailed structural measurements in nucleic acid containing systems
Nucleic acid base analog fret-pair facilitating detailed structural measurements in nucleic acid containing systems
We present the first nucleobase analog fluorescence resonance energy transfer (FRET)-pair. The pair consists of tCO, 1,3-diaza-2-oxophenoxazine, as an energy donor and the newly developed tCnitro, 7-nitro-1,3-diaza-2-oxophenothiazine, as an energy acceptor.

The FRET-pair successfully monitors distances covering up to more than one turn of the DNA duplex. Importantly, we show that the rigid stacking of the two base analogs, and consequently excellent control of their exact positions and orientations, results in a high control of the orientation factor and hence very distinct FRET changes as the number of bases separating tCO and tCnitro is varied.

A set of DNA strands containing the FRET-pair at wisely chosen locations will, thus, make it possible to accurately distinguish distance- from orientation-changes using FRET.

In combination with the good nucleobase analog properties, this points toward detailed studies of the inherent dynamics of nucleic acid structures. Moreover, the placement of FRET-pair chromophores inside the base stack will be a great advantage in studies where other (biomacro)molecules interact with the nucleic acid.

Lastly, our study gives possibly the first truly solid experimental support to the dependence of energy transfer efficiency on orientation of involved transition dipoles as predicted by the Frster theory.
0002-7863
4288-4293
Börjesson, Karl
252a6cb2-9d9f-4e25-8e73-fad787fa8b8e
Preus, Søren
e2c84d70-23ea-4575-9fe7-1969fc931b68
El-Sagheer, Afaf H.
0bf56d90-78ee-4772-add8-453ccacc39be
Brown, Tom
a64aae36-bb30-42df-88a2-11be394e8c89
Albinsson, Bo
1571067f-df46-43f7-96b9-52dc43278777
Wilhelmsson, L. Marcus
bcf4f67a-198c-4c5e-80b8-a78f743509d4
Börjesson, Karl
252a6cb2-9d9f-4e25-8e73-fad787fa8b8e
Preus, Søren
e2c84d70-23ea-4575-9fe7-1969fc931b68
El-Sagheer, Afaf H.
0bf56d90-78ee-4772-add8-453ccacc39be
Brown, Tom
a64aae36-bb30-42df-88a2-11be394e8c89
Albinsson, Bo
1571067f-df46-43f7-96b9-52dc43278777
Wilhelmsson, L. Marcus
bcf4f67a-198c-4c5e-80b8-a78f743509d4

Börjesson, Karl, Preus, Søren, El-Sagheer, Afaf H., Brown, Tom, Albinsson, Bo and Wilhelmsson, L. Marcus (2009) Nucleic acid base analog fret-pair facilitating detailed structural measurements in nucleic acid containing systems. Journal of the American Chemical Society, 131 (12), 4288-4293. (doi:10.1021/ja806944w).

Record type: Article

Abstract

We present the first nucleobase analog fluorescence resonance energy transfer (FRET)-pair. The pair consists of tCO, 1,3-diaza-2-oxophenoxazine, as an energy donor and the newly developed tCnitro, 7-nitro-1,3-diaza-2-oxophenothiazine, as an energy acceptor.

The FRET-pair successfully monitors distances covering up to more than one turn of the DNA duplex. Importantly, we show that the rigid stacking of the two base analogs, and consequently excellent control of their exact positions and orientations, results in a high control of the orientation factor and hence very distinct FRET changes as the number of bases separating tCO and tCnitro is varied.

A set of DNA strands containing the FRET-pair at wisely chosen locations will, thus, make it possible to accurately distinguish distance- from orientation-changes using FRET.

In combination with the good nucleobase analog properties, this points toward detailed studies of the inherent dynamics of nucleic acid structures. Moreover, the placement of FRET-pair chromophores inside the base stack will be a great advantage in studies where other (biomacro)molecules interact with the nucleic acid.

Lastly, our study gives possibly the first truly solid experimental support to the dependence of energy transfer efficiency on orientation of involved transition dipoles as predicted by the Frster theory.

Full text not available from this repository.

More information

Published date: 9 March 2009

Identifiers

Local EPrints ID: 146683
URI: https://eprints.soton.ac.uk/id/eprint/146683
ISSN: 0002-7863
PURE UUID: 9ae64beb-fddc-4bfd-95b7-ad90691427b2

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Date deposited: 22 Apr 2010 08:50
Last modified: 17 Jul 2019 00:04

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