Signal propagation in proteins and relation to equilibrium fluctuations.

ABSTRACT: Elastic network (EN) models have been widely used in recent years for describing protein dynamics, based on the premise that the motions naturally accessible to native structures are relevant to biological function. We posit that equilibrium motions also determine communication mechanisms inherent to the network architecture. To this end, we explore the stochastics of a discrete-time, discrete-state Markov process of information transfer across the network of residues. We measure the communication abilities of residue pairs in terms of hit and commute times, i.e., the number of steps it takes on an average to send and receive signals. Functionally active residues are found to possess enhanced communication propensities, evidenced by their short hit times. Furthermore, secondary structural

SUBMITTER: Chennubhotla C 

PROVIDER: S-EPMC1988854 | biostudies-literature | 2007 Sep

REPOSITORIES: biostudies-literature