Molecular stripping in the NF-κB/IκB/DNA genetic regulatory network.

ABSTRACT: Genetic switches based on the [Formula: see text] system are master regulators of an array of cellular responses. Recent kinetic experiments have shown that [Formula: see text] can actively remove NF-κB bound to its genetic sites via a process called "molecular stripping." This allows the [Formula: see text] switch to function under kinetic control rather than the thermodynamic control contemplated in the traditional models of gene switches. Using molecular dynamics simulations of coarse-grained predictive energy landscape models for the constituent proteins by themselves and interacting with the DNA we explore the functional motions of the transcription factor [Formula: see text] and its various binary and ternary complexes with DNA and the inhibitor IκB. These studies show that the funct

SUBMITTER: Potoyan DA 

PROVIDER: S-EPMC4711861 | biostudies-literature | 2016 Jan

REPOSITORIES: biostudies-literature