Unraveling siRNA unzipping kinetics with graphene


Autoria(s): Mogurampelly, Santosh; Panigrahi, Swati; Bhattacharyya, Dhananjay; Sood, AK; Maiti, Prabal K
Data(s)

07/08/2012

Resumo

Using all atom molecular dynamics simulations, we report spontaneous unzipping and strong binding of small interfering RNA (siRNA) on graphene. Our dispersion corrected density functional theory based calculations suggest that nucleosides of RNA have stronger attractive interactions with graphene as compared to DNA residues. These stronger interactions force the double stranded siRNA to spontaneously unzip and bind to the graphene surface. Unzipping always nucleates at one end of the siRNA and propagates to the other end after few base-pairs get unzipped. While both the ends get unzipped, the middle part remains in double stranded form because of torsional constraint. Unzipping probability distributions fitted to single exponential function give unzipping time (tau) of the order of few nanoseconds which decrease exponentially with temperature. From the temperature variation of unzipping time we estimate the energy barrier to unzipping. (C) 2012 American Institute of Physics. http://dx.doi.org/10.1063/1.4742189]

Formato

application/pdf

Identificador

http://eprints.iisc.ernet.in/45402/1/%20Jol_Che_Phy_137-5_054903_2012.pdf

Mogurampelly, Santosh and Panigrahi, Swati and Bhattacharyya, Dhananjay and Sood, AK and Maiti, Prabal K (2012) Unraveling siRNA unzipping kinetics with graphene. In: Journal of Chemical Physics, 137 (5). 054903-1.

Publicador

American Institute of Physics

Relação

http://dx.doi.org/10.1063/1.4742189

http://eprints.iisc.ernet.in/45402/

Palavras-Chave #Physics
Tipo

Journal Article

PeerReviewed