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The hit-and-run of cell wall synthesis: LpoB transiently binds and activates PBP1b through a conserved allosteric switch

Author

Listed:
  • Irina Shlosman

    (Harvard Medical School)

  • Andrea Vettiger

    (Université de Lausanne)

  • Thomas G. Bernhardt

    (Harvard Medical School
    Harvard Medical School)

  • Andrew C. Kruse

    (Harvard Medical School)

  • Joseph J. Loparo

    (Harvard Medical School)

Abstract

The peptidoglycan (PG) cell wall is the primary protective layer of bacteria, making the process of PG synthesis a key antibiotic target. Class A penicillin-binding proteins (aPBPs) are a family of conserved and ubiquitous PG synthases that fortify and repair the PG matrix. In gram-negative bacteria, these enzymes are regulated by outer-membrane tethered lipoproteins. However, the molecular mechanism by which lipoproteins coordinate the spatial recruitment and enzymatic activation of aPBPs remains unclear. Here we use single-molecule FRET and single-particle tracking in E. coli to show that a prototypical lipoprotein activator LpoB triggers site-specific PG synthesis by PBP1b through conformational rearrangements. Once synthesis is initiated, LpoB affinity for PBP1b dramatically decreases and it dissociates from the synthesizing enzyme. Our results suggest that transient allosteric coupling between PBP1b and LpoB directs PG synthesis to areas of low peptidoglycan density, while simultaneously facilitating efficient lipoprotein redistribution to other sites in need of fortification.

Suggested Citation

  • Irina Shlosman & Andrea Vettiger & Thomas G. Bernhardt & Andrew C. Kruse & Joseph J. Loparo, 2025. "The hit-and-run of cell wall synthesis: LpoB transiently binds and activates PBP1b through a conserved allosteric switch," Nature Communications, Nature, vol. 16(1), pages 1-15, December.
  • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-62051-y
    DOI: 10.1038/s41467-025-62051-y
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    References listed on IDEAS

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    1. Carlas S. Smith & Karina Jouravleva & Maximiliaan Huisman & Samson M. Jolly & Phillip D. Zamore & David Grunwald, 2019. "An automated Bayesian pipeline for rapid analysis of single-molecule binding data," Nature Communications, Nature, vol. 10(1), pages 1-9, December.
    2. Timothy K. Lee & Kevin Meng & Handuo Shi & Kerwyn Casey Huang, 2016. "Single-molecule imaging reveals modulation of cell wall synthesis dynamics in live bacterial cells," Nature Communications, Nature, vol. 7(1), pages 1-9, December.
    3. Nathanael A. Caveney & Sean D. Workman & Rui Yan & Claire E. Atkinson & Zhiheng Yu & Natalie C. J. Strynadka, 2021. "CryoEM structure of the antibacterial target PBP1b at 3.3 Å resolution," Nature Communications, Nature, vol. 12(1), pages 1-7, December.
    4. Robert D. Turner & Stéphane Mesnage & Jamie K. Hobbs & Simon J. Foster, 2018. "Molecular imaging of glycan chains couples cell-wall polysaccharide architecture to bacterial cell morphology," Nature Communications, Nature, vol. 9(1), pages 1-8, December.
    5. Alexander J. Meeske & Eammon P. Riley & William P. Robins & Tsuyoshi Uehara & John J. Mekalanos & Daniel Kahne & Suzanne Walker & Andrew C. Kruse & Thomas G. Bernhardt & David Z. Rudner, 2016. "SEDS proteins are a widespread family of bacterial cell wall polymerases," Nature, Nature, vol. 537(7622), pages 634-638, September.
    6. Hansjörg Götzke & Markus Kilisch & Markel Martínez-Carranza & Shama Sograte-Idrissi & Abirami Rajavel & Thomas Schlichthaerle & Niklas Engels & Ralf Jungmann & Pål Stenmark & Felipe Opazo & Steffen Fr, 2019. "The ALFA-tag is a highly versatile tool for nanobody-based bioscience applications," Nature Communications, Nature, vol. 10(1), pages 1-12, December.
    7. Irina Shlosman & Elayne M. Fivenson & Morgan S. A. Gilman & Tyler A. Sisley & Suzanne Walker & Thomas G. Bernhardt & Andrew C. Kruse & Joseph J. Loparo, 2023. "Allosteric activation of cell wall synthesis during bacterial growth," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    8. Rie Nygaard & Chris L. B. Graham & Meagan Belcher Dufrisne & Jonathan D. Colburn & Joseph Pepe & Molly A. Hydorn & Silvia Corradi & Chelsea M. Brown & Khuram U. Ashraf & Owen N. Vickery & Nicholas S. , 2023. "Structural basis of peptidoglycan synthesis by E. coli RodA-PBP2 complex," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    9. Megan Sjodt & Kelly Brock & Genevieve Dobihal & Patricia D. A. Rohs & Anna G. Green & Thomas A. Hopf & Alexander J. Meeske & Veerasak Srisuknimit & Daniel Kahne & Suzanne Walker & Debora S. Marks & Th, 2018. "Structure of the peptidoglycan polymerase RodA resolved by evolutionary coupling analysis," Nature, Nature, vol. 556(7699), pages 118-121, April.
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