Peripheral membrane proteins bind temporarily to biological membranes. Unlike integral membrane proteins, the portion of the protein inserted into the lipid-bilayer is restricted to the interfacial area. In common with integral membrane proteins they share a paucity of structural data.
We are interested in understanding the peripheral membrane binding mechanisms and the role of different amino acid types in peripheral binding.
Based on our investigation on a bacterial phospholipase from Bacillus thuringiensis (BtPI-PLC), we suggested that choline-tyrosine cation-pi interactions at the membrane interface might be a novel anchoring mechanism for peripheral proteins (Grauffel et al., JACS, 2013). We evaluated the ability of the CHARMM force field to model these interactions and proposed a modification of the Lennard-Jones term to best reproduce QM reference structures and potential energy surfaces (Khan et al., JCTC, 2016). We could show that BtPI-PLC, unlike prototypical peripheral proteins, uses weak electrostatic interactions to bind to lipid vesicles (Khan et al., Biophys J., 2015). A quantitative model for BtPI-PLC cell membrane interactions has been proposed by the group of our collaborator Anne Gershenson (UMass-Amherts) based on single molecule experiments and computations (Yang et al., JACS, 2015). Using a combination of in vitro and in silico mutagenesis conducted by the group of Anne Gershenson, our teams had earlier demonstrated how correlated motion in a bacterial phospholipases is important for their enzymatic activity (Cheng et al., Biophys. J., 2013).
Together with the Arnesen’s group we have shown that the N-alpha acetyltransferse (Naa60) anchors to the Golgi membrane using two amphipathic helices located at its C-terminus (Asknes et al., J Biol Chem, 2017). The Arnesen’s group had earlier revealed that Naa60 shows a distinctive localization to the secretory pathways and preferentially acetylates transmembrane proteins with an N-terminus facing the cytosol.
Our investigation on serine protease (PR3) with implicit membrane model reveals that PR3 is able to bind both anionic and neutral membranes but with a preference for negatively charged lipids (Hajjar et al., Proteins, 2008). We identified a unique membrane-binding site, which contains hydrophobic patch, carried by surface loops that insert into membrane. Simulations with explicit (all-atoms) bilayer models reveal the importance of interactions between aromatic amino acids and the cationic lipid headgroups (cation-pi interactions) (Broemstrup, PCCP, 2010). Our work (experiments and simulations) reveals PR3 has higher affinity towards zwitterionic membranes compared to its homologue HNE due to partitioning of aromatic amino acids in the membrane (Schillinger et al., BBA-Biomembranes, 2014).