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The simplicity of completion time distributions for common complex biochemical processes

Golan Bel1,3, Brian Munsky1,3 and Ilya Nemenman2

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Biochemical processes typically involve huge numbers of individual reversible steps, each with its own dynamical rate constants. For example, kinetic proofreading processes rely upon numerous sequential reactions in order to guarantee the precise construction of specific macromolecules. In this work, we study the transient properties of such systems and fully characterize their first passage (completion) time distributions. In particular, we provide explicit expressions for the mean and the variance of the completion time for a kinetic proofreading process and computational analyses for more complicated biochemical systems. We find that, for a wide range of parameters, as the system size grows, the completion time behavior simplifies: it becomes either deterministic or exponentially distributed, with a very narrow transition between the two regimes. In both regimes, the dynamical complexity of the full system is trivial compared to its apparent structural complexity. Similar simplicity is likely to arise in the dynamics of many complex multistep biochemical processes. In particular, these findings suggest not only that one may not be able to understand individual elementary reactions from macroscopic observations, but also that such an understanding may be unnecessary.


PACS

87.15.R- Reactions and kinetics

87.15.H- Dynamics of biomolecules

87.15.B- Structure of biomolecules

02.50.Ga Markov processes

Subjects

Computational physics

Biological physics

Dates

Issue 1 (March 2010)

Received 28 August 2009, accepted for publication 12 November 2009

Published 21 December 2009

 
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