Specificity and Completion Time Distributions of Biochemical Processes - Condensed Matter > Statistical MechanicsReport as inadecuate




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Abstract: In order to produce specific complex structures from a large set of similarbiochemical building blocks, many biochemical systems require high sensitivityto small molecular differences. The first and most common model used to explainthis high specificity is kinetic proofreading, which has been extended to avariety of systems from detection of DNA mismatch to cell signaling processes.While the specification properties of the kinetic proofreading model are wellknown and were studied in various contexts, very little is known about itstemporal behavior. In this work, we study the dynamical properties of discretestochastic two branch kinetic proofreading schemes. Using the Laplace transformof the corresponding chemical master equation, we obtain an analytical solutionfor the completion time distribution. In particular we provide expressions forthe specificity and the mean and the variance of the process completion times.We also show that, for a wide range of parameters a process distinguishingbetween two different products can be reduced to a much simpler three pointprocess. Our results allow for the systematic study of the interplay betweenspecificity and completion times as well as testing the validity of the kineticproofreading model in biological systems.



Author: Brian Munsky, Golan Bel, Ilya Nemenman

Source: https://arxiv.org/







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