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We describe and solve a discrete persistent chain model of protein binding onDNA, involving an extra sigma_i s at a site i of the DNA. This variable takesthe value 1 or 0 depending on whether the site is occupied by a protein or not.In addition, if the site is occupied by a protein, there is an extra energycost epsilon. For small force, we obtain analytic expressions for theforce-extension curve and the fraction of bound protein on the DNA.For higherforces, the model can be solved numerically to obtain force extension curvesand the average fraction of bound proteins as a function of applied force. Ourmodel can be used to analyze experimental force extension curves of proteinbinding on DNA, and hence deduce the number of bound proteins in the case ofnon-specific binding.

Discrete Persistent Chain Model for Protein Binding on DNA