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Directed motion emerging from two coupled random processes: Translocation of a chain through a membrane nanopore driven by binding proteins | T. Ambjoernsson
; M. A. Lomholt
; R. Metzler
; | Date: |
21 Aug 2005 | Subject: | Biomolecules; Soft Condensed Matter | q-bio.BM cond-mat.soft | Affiliation: | NORDITA, Copenhagen | Abstract: | We investigate the translocation of a stiff polymer consisting of M monomers through a nanopore in a membrane, in the presence of binding particles (chaperones) that bind onto the polymer, and partially prevent backsliding of the polymer through the pore. The process is characterized by the rates: k for the polymer to make a diffusive jump through the pore, q for unbinding of a chaperone, and the rate q kappa for binding (with a binding strength kappa); except for the case of no binding kappa=0 the presence of the chaperones give rise to an effective force that drives the translocation process. Based on a (2+1) variate master equation, we study in detail the coupled dynamics of diffusive translocation and (partial) rectification by the binding proteins. In particular, we calculate the mean translocation time as a function of the various physical parameters. | Source: | arXiv, q-bio.BM/0508029 | Services: | Forum | Review | PDF | Favorites |
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