September 28, 2008
Conference Paper

Molecular Models to Emulate Confinement Effects on the Internal Dynamics of Organophosphorous Hydrolase

Abstract

The confinement of the metalloenzyme organophosphorous hydrolase in functionalized mesoporous silica (FMS) enhances the stability and increases catalytic specific activity by 200% compared to the enzyme in solution. The mechanism by which these processes take place is not well understood. We have developed two coarse-grain models of confinement to provide insights into how the nanocage environment steers enzyme conformational dynamics towards enhanced stability and enzymatic activity. The structural dynamics of organophosphorous hydrolase under the two confinement models are very distinct from each other. Comparisons of the present simulations show that only one model leads to an accurate depiction of the internal dynamics of the enzyme.

Revised: April 7, 2011 | Published: September 28, 2008

Citation

Gomes D.B., R.D. Lins, P.G. Pascutti, T. Straatsma, and T.A. Soares. 2008. Molecular Models to Emulate Confinement Effects on the Internal Dynamics of Organophosphorous Hydrolase. In Lecture Notes in Computer Science: Advances in Bioinformatics and Computational Biology, Third Brazilian Symposium on Bioinformatics, BSB 2008, Santo André, Brazil, August 28-30, 2008. Proceedings, edited by S. Istrail, P. Pevzner, and M.Waterman, 5167, 68-78. New York, New York:Springer. PNNL-SA-59918. doi:10.1007/978-3-540-85557-6_7