8BRI

VaPomAB MSP1D1 nanodisc


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Ion selectivity and rotor coupling of the Vibrio flagellar sodium-driven stator unit.

Hu, H.Popp, P.F.Santiveri, M.Roa-Eguiara, A.Yan, Y.Martin, F.J.O.Liu, Z.Wadhwa, N.Wang, Y.Erhardt, M.Taylor, N.M.I.

(2023) Nat Commun 14: 4411-4411

  • DOI: https://doi.org/10.1038/s41467-023-39899-z
  • Primary Citation of Related Structures:  
    8BRD, 8BRI

  • PubMed Abstract: 

    Bacteria swim using a flagellar motor that is powered by stator units. Vibrio spp. are highly motile bacteria responsible for various human diseases, the polar flagella of which are exclusively driven by sodium-dependent stator units (PomAB). However, how ion selectivity is attained, how ion transport triggers the directional rotation of the stator unit, and how the stator unit is incorporated into the flagellar rotor remained largely unclear. Here, we have determined by cryo-electron microscopy the structure of Vibrio PomAB. The electrostatic potential map uncovers sodium binding sites, which together with functional experiments and molecular dynamics simulations, reveal a mechanism for ion translocation and selectivity. Bulky hydrophobic residues from PomA prime PomA for clockwise rotation. We propose that a dynamic helical motif in PomA regulates the distance between PomA subunit cytoplasmic domains, stator unit activation, and torque transmission. Together, our study provides mechanistic insights for understanding ion selectivity and rotor incorporation of the stator unit of the bacterial flagellum.


  • Organizational Affiliation

    Structural Biology of Molecular Machines Group, Protein Structure & Function Program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200, Copenhagen, Denmark.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chemotaxis protein PomA
A, B, C, D, E
253Vibrio alginolyticusMutation(s): 0 
Gene Names: pomA
Membrane Entity: Yes 
UniProt
Find proteins for O06873 (Vibrio alginolyticus)
Explore O06873 
Go to UniProtKB:  O06873
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO06873
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellar motor protein
F, G
315Vibrio alginolyticusMutation(s): 0 
Gene Names: N646_2843
Membrane Entity: Yes 
UniProt
Find proteins for A0A7Y4B4T7 (Vibrio alginolyticus)
Explore A0A7Y4B4T7 
Go to UniProtKB:  A0A7Y4B4T7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A7Y4B4T7
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Novo Nordisk FoundationDenmark8123-00002B
Novo Nordisk FoundationDenmarkNNF17OC0031006
LundbeckfondenDenmarkR347-2020-2429

Revision History  (Full details and data files)

  • Version 1.0: 2023-06-14
    Type: Initial release
  • Version 1.1: 2023-06-21
    Changes: Structure summary
  • Version 1.2: 2023-12-27
    Changes: Data collection, Database references