Paper Citing NAMD - Abstract
Lopez, Carlos F.; Nielsen, Steven O.; Srinivas, Goundla; DeGrado, William F.; Klein, Michael L.
Probing membrane insertion activity of antimicrobial polymers via coarse-grain molecular dynamics
JOURNAL OF CHEMICAL THEORY AND COMPUTATION, 2:649-655, MAY 2006
Knowledge of the mechanism of action of antimicrobial agents is crucial for the development of new compounds to combat microbial pathogens. To this end, computational studies on the interaction of known membrane-active antimicrobial polymers with phospholipid bilayers reveal spontaneous membrane insertion and cooperative action at low and high concentrations, respectively. In late-stage attack, antimicrobials cross the membrane core and occasionally align to provide a stepping-stone pathway for water permeation; this suggests a possible new mode of action that does not depend on pore formation for transport to and across the inner leaflet. The computations rationalize the observed activity of a new class of antimicrobial compounds.
