Structural basis of inhibition of lipid-linked oligosaccharide flippase PglK by a conformational nanobody.Perez, C., Kohler, M., Janser, D., Pardon, E., Steyaert, J., Zenobi, R., Locher, K.P.
(2017) Sci Rep 7: 46641-46641
- PubMed: 28422165
- DOI: 10.1038/srep46641
- PubMed Abstract:
PglK is an ABC transporter that flips a lipid-linked oligosaccharide (LLO) that serves as a donor in protein N-glycosylation. Previous structures revealed two inward-facing conformations, both with very large separations of the nucleotide binding dom ...
PglK is an ABC transporter that flips a lipid-linked oligosaccharide (LLO) that serves as a donor in protein N-glycosylation. Previous structures revealed two inward-facing conformations, both with very large separations of the nucleotide binding domains (NBDs), and a closed, ADP-bound state that featured an occluded cavity. To investigate additional states, we developed conformation-sensitive, single-domain camelid nanobodies (Nb) and studied their effect on PglK activity. Biochemical, structural, and mass spectrometric analyses revealed that one inhibitory Nb binds as a single copy to homodimeric PglK. The co-crystal structure of this Nb and ADP-bound PglK revealed a new, narrowly inward-open conformation. Rather than inducing asymmetry in the PglK homodimer, the binding of one Nb results in steric constraints that prevent a second Nb to access the symmetry-related site in PglK. The Nb performed its inhibitory role by a "sticky-doorstop" mechanism, where inhibition of ATP hydrolysis and LLO flipping activity occurs due to impaired closing of the NBD interface, which prevents PglK from converting to an outward-open conformation. This inhibitory mode suggests tight conformational coupling between the ATPase sites, which may apply to other ABC transporters.
Department of Biology, Institute of Molecular Biology and Biophysics, ETH Zürich, CH-8093 Zürich, Switzerland.,VIB Center for Structural Biology, VIB, 1050 Brussels, Belgium.,Department of Chemistry and Applied Biosciences, ETH Zürich, CH-8093 Zürich, Switzerland.,Structural Biology Brussels, Vrije Universiteit Brussel, 1050 Brussels, Belgium.