The regulatory peptide phospholamban (PLB) binds its target, the SERCA calcium pump, with high affinity when the pump is in a calcium-free conformation and with lower affinity when the Ca binding sites are occupied. To probe the energetics of PLB binding to the canonical (M6) binding site and several hypothetical alternative binding sites on SERCA, we performed steered molecular dynamics simulations. We measured the force required to rupture the regulatory complex as an index of PLB-SERCA binding affinity. Rupture force varied according to the binding site, the conformation of SERCA, and the axial rotation of the PLB transmembrane helix. We have previously hypothesized that PLB may bind to an alternative site on SERCA helix M9 in a configuration analogous to the complex of the Na+/K+-ATPase (NKA) with its regulatory partner FXYD2. Steered molecular dynamics results were not consistent with that hypothesis, as PLB interacted significantly more strongly with M6 than M9 for all SERCA conformations tested. We also evaluated a structural model of dwarf open reading frame (DWORF) bound to SERCA and observed that this non-inhibitory micropeptide binds with an apparent affinity that is comparable to PLB. The results provide insight into competitive binding of peptide regulators of SERCA, and reveals new information about dynamic changes in regulatory complex stability during the Ca transport cycle.
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