title: A model for biased diffusion of collagenase along collagen fibrils.
abstract: We present a model to describe the biased diffusion of a collagenase along collagen fibrils. Based on the structures of collagen fibril and collagenase, the interaction is described by a one-dimensional potential that is symmetric in the region of no cleavage and asymmetric in the cleavage region. We show that the mean velocity of the unidirectional diffusion of the collagenase depends on the three parameters: the asymmetric ratio of the local potential in the cleavage region, the chemical reaction rate of proteolysis and the jumping rate of collagenase between two neighboring tracks. We calculate the correlation function and the mean transport velocity for both wild-type and mutant collagenases along collagen fibrils, the results of which are consistent with the previous experiments.
authors.affiliation: Laboratory of Soft Matter Physics, Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100080, China.
authors.forename: Jun
authors.initials: J
authors.lastname: Qian
authors.forename: Ping
authors.initials: P
authors.lastname: Xie
authors.forename: Shuo-Xing
authors.initials: SX
authors.lastname: Dou
authors.forename: Peng-Ye
authors.initials: PY
authors.lastname: Wang
mesh_terms: D000818:Animals; D003094:Collagen / Q000378:metabolism*; D017364:Collagenases / Q000502:physiology*; D003198:Computer Simulation; D004058:Diffusion; D005109:Extracellular Matrix / Q000378:metabolism*; D008956:Models, Chemical
chemical_list: D003094:Collagen; D017364:Collagenases