A Study of the Mechanism of Action of Zervamicin IIB Peptide Antibiotic by Molecular Dynamics Simulation

Авторы: Shaitan K.V., Levtsova O.V., Makarov V., Kirpichnikov M.P.
Журнал: Nature Preceedings
Год издания: 2009
DOI: 10101/npre.2009.3624.1
Аннотация: We model mechanism of action of a channel - forming peptide antibiotic, zervamicin IIB, by molecular dynamics (MD) simulation. Interaction of this peptide with neutral and negatively charged lipid bilayers is investigated. It is found that charge of membrane surface influences the orientation of zervamicin IIB molecule, that may in turn effect its permeation into the membrane. On this basis we propose modifications to ZrvIIB structure that may increase its affinity towards the prokaryotic cellular membrane. Zervamicin IIB transmembrane channels are modeled as bundles consisting of 4, 5 and 6 individual peptide monomers. Our results suggest that four monomers don’t form a stable waterfilled ion channel. Thus the channel with the least number of monomers (and the lowest conductance level by literature data) is a pentamer. Key words : molecular dynamics, antimicrobial peptide, zervamicin IIB, membrane channel http://precedings.nature.com/documents/3624/version/1
Добавил в систему: Шайтан Константин Вольдемарович

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