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Inhibited KdpFABC resides in an E1 off-cycle state

View ORCID ProfileJakob M. Silberberg, View ORCID ProfileCharlott Stock, Lisa Hielkema, View ORCID ProfileRobin A. Corey, View ORCID ProfileJan Rheinberger, Dorith Wunnicke, View ORCID ProfileVictor R. A. Dubach, Phillip J. Stansfeld, View ORCID ProfileInga Hänelt, View ORCID ProfileCristina Paulino
doi: https://doi.org/10.1101/2022.06.19.496728
Jakob M. Silberberg
1Institute of Biochemistry, Biocenter, Goethe University Frankfurt, Max-von-Laue-Straße 9, 60438, Frankfurt/Main, Germany
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Charlott Stock
1Institute of Biochemistry, Biocenter, Goethe University Frankfurt, Max-von-Laue-Straße 9, 60438, Frankfurt/Main, Germany
2DANDRITE, Nordic EMBL Partnership for Molecular Medicine, Department of Molecular Biology and Genetics, Aarhus University, Universitetsbyen 81, DK-8000 Aarhus C, Denmark
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Lisa Hielkema
3Department of Structural Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
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Robin A. Corey
4Department of Biochemistry, University of Oxford, South Parks Road, Oxford, OX1 3QU, UK
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Jan Rheinberger
3Department of Structural Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
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Dorith Wunnicke
1Institute of Biochemistry, Biocenter, Goethe University Frankfurt, Max-von-Laue-Straße 9, 60438, Frankfurt/Main, Germany
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Victor R. A. Dubach
3Department of Structural Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
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Phillip J. Stansfeld
5School of Life Sciences & Department of Chemistry, University of Warwick, Coventry, CV4 7AL, UK
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Inga Hänelt
1Institute of Biochemistry, Biocenter, Goethe University Frankfurt, Max-von-Laue-Straße 9, 60438, Frankfurt/Main, Germany
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  • For correspondence: c.paulino@rug.nl
Cristina Paulino
3Department of Structural Biology, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands
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  • For correspondence: c.paulino@rug.nl
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Abstract

KdpFABC is a high-affinity prokaryotic K+ uptake system that forms a functional chimera between a channel-like subunit (KdpA) and a P-type ATPase (KdpB). At high K+ levels, KdpFABC needs to be inhibited to prevent excessive K+ accumulation to the point of toxicity. This is achieved by a phosphorylation of the serine residue in the TGES162 motif in the A domain of the pump subunit KdpB (KdpBS162-P). Here, we explore the structural basis of inhibition by KdpBS162 phosphorylation by determining the conformational landscape of KdpFABC under inhibiting and non-inhibiting conditions. Under turnover conditions, we identified a new inhibited KdpFABC conformation that we termed E1-P tight, which is not part of the canonical Post-Albers transport cycle of P-type ATPases. It likely represents the biochemically described stalled E1-P state adopted by KdpFABC upon KdpBS162 phosphorylation. The E1-P tight state exhibits a compact fold of the three cytoplasmic domains and is likely adopted when the transition from high-energy E1-P states to E2-P states is unsuccessful. This study represents the first structural characterization of a biologically relevant off-cycle state in the P-type ATPase family and supports the emerging discussion of P-type ATPase regulation by such conformations.

Competing Interest Statement

The authors have declared no competing interest.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted June 19, 2022.
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Inhibited KdpFABC resides in an E1 off-cycle state
Jakob M. Silberberg, Charlott Stock, Lisa Hielkema, Robin A. Corey, Jan Rheinberger, Dorith Wunnicke, Victor R. A. Dubach, Phillip J. Stansfeld, Inga Hänelt, Cristina Paulino
bioRxiv 2022.06.19.496728; doi: https://doi.org/10.1101/2022.06.19.496728
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Inhibited KdpFABC resides in an E1 off-cycle state
Jakob M. Silberberg, Charlott Stock, Lisa Hielkema, Robin A. Corey, Jan Rheinberger, Dorith Wunnicke, Victor R. A. Dubach, Phillip J. Stansfeld, Inga Hänelt, Cristina Paulino
bioRxiv 2022.06.19.496728; doi: https://doi.org/10.1101/2022.06.19.496728

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