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PagP is a bacterial outer membrane protein consisting of an 8 stranded transmembrane beta-barrel and an N-terminal alpha-helix. It is an enzyme which catalyses transfer of a palmitoyl chain from a phospholipid to lipid A. Molecular dynamics simulations have been used to compare the dynamic behaviour in simulations starting from two different structures (X-ray vs. NMR) and in six different environments (detergent micelles formed by dodecyl phosphocholine and by octyl glucoside, vs. four species of phospholipid bilayer). Analysis of interactions between the protein and its environment reveals the role played by the N-terminal alpha-helix, which interacts with the lipid headgroups to lock the PagP molecule into the bilayer. The PagP beta-barrel adopts a tilted orientation in lipid bilayers, facilitating access of lipid tails into the mouth of the central binding pocket. In simulations starting from the X-ray structure in lipid bilayer, the L1 and L2 loops move towards one another, leading to the formation of a putative active site by residues H33, D76 and S77 coming closer together.

Original publication

DOI

10.1080/09687680902788967

Type

Journal article

Journal

Mol Membr Biol

Publication Date

05/2009

Volume

26

Pages

205 - 214

Keywords

Acyltransferases, Bacterial Outer Membrane Proteins, Computer Simulation, Crystallography, X-Ray, Escherichia coli, Escherichia coli Proteins, Lipid Bilayers, Magnetic Resonance Spectroscopy, Micelles, Models, Molecular, Protein Structure, Secondary, Thermodynamics