238-Pos Board # B112
Simulations of Bacterial
Outer Membrane Proteins: Towards an e-Outer Membrane
Marc Baaden1, Mark
S.P. Sansom1, Peter Bond1,
Katherine Cox1, Sundeep Deol1, Jose Faraldo-Gomez1,
Christoph Meier1
1University of Oxford, Rex Richards Building, South Parks Rd., Oxford,
OX1 3QU United Kingdom
High
resolution structures are known for ca. 20 bacterial outer membrane proteins
(OMPs). These OMPs, based upon a β-barrel architecture, embrace a range of
functions including: pores, transporters, recognition proteins and enzymes.
OMPs are amenable to molecular dynamics (MD) simulations, enabling us to probe
their multi-nanosecond timescale dynamics when embedded in lipid bilayers. We
propose that MD simulations can be used to generate models of bacterial
membranes containing multiple OMPs, thus helping us to explore emergent higher
order properties of these membranes. We have performed nanosecond MD
simulations on a range of OMPs, including: OmpA, OpcA, OmpT, OMPLA, FhuA and
FepA. As a case study we present simulation studies of the structural dynamics of
OmpA vs. environment. These reveal that subtle changes in dynamics can explain
the relationship between crystal structure (a closed pore) and functional
measurements (an open pore). We document progress towards a database of OMP
simulations (e-Outer Membrane).