Issue
EPL
Volume 84, Number 3, November 2008
Article Number 38003
Number of page(s) 3
Section Interdisciplinary Physics and Related Areas of Science and Technology
DOI http://dx.doi.org/10/1209/0295-5075/84/38003
Published online 14 October 2008
EPL, 84 (2008) 38003
DOI: 10/1209/0295-5075/84/38003

How gene colocalization can be optimized by tuning the diffusion constant of transcription factors

O. Bénichou, C. Loverdo and R. Voituriez

Laboratoire de Physique Théorique de la Matière Condensée (UMR 7600), Université Paris 6 4 Place Jussieu, 75255 Paris Cedex, France, EU

voiturie@lptmc.jussieu.fr

received 19 June 2008; accepted in final form 16 September 2008; published November 2008
published online 14 October 2008

Abstract
We introduce an analytical model which shows quantitatively that gene colocalization significantly accelerates the association of transcriptions factors (TFs) with their target site on DNA. This model takes into account the influence of conformational fluctuations of TFs on reactivity, and shows that the benefit due to colocalization, highlighted by Kolesov et al. (Proc. Natl. Acad. Sci. U.S.A., 104 (2007) 13948), can be further optimized by tuning the diffusion coefficient of TFs. This diffusion optimized colocalization mechanism is robust and compatible with available experimental data, and could help understanding the observed gene transcription efficiency.

PACS
87.10.Mn - Stochastic modeling.
87.15.R- - Reactions and kinetics.
05.40.Jc - Brownian motion.

© EPLA 2008