Topology of protein interaction network shapes protein abundances and strengths of their functional and nonspecific interactions.

ABSTRACT: How do living cells achieve sufficient abundances of functional protein complexes while minimizing promiscuous nonfunctional interactions? Here we study this problem using a first-principle model of the cell whose phenotypic traits are directly determined from its genome through biophysical properties of protein structures and binding interactions in a crowded cellular environment. The model cell includes three independent prototypical pathways, whose topologies of protein-protein interaction (PPI) subnetworks are different, but whose contributions to the cell fitness are equal. Model cells evolve through genotypic mutations and phenotypic protein copy number variations. We found a strong relationship between evolved physical-chemical properties of protein interactions and their abundances

SUBMITTER: Heo M 

PROVIDER: S-EPMC3054035 | biostudies-literature | 2011 Mar

REPOSITORIES: biostudies-literature