6VPW | pdb_00006vpw

1.90 Angstrom Resolution Crystal Structure Chemotaxis protein CheX from Vibrio vulnificus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free: 
    0.225 (Depositor) 
  • R-Value Work: 
    0.174 (Depositor) 
  • R-Value Observed: 
    0.177 (Depositor) 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

Altering chemotaxis as a strategy to enhance the foraging range of motility-restricted bacteria.

Frederick, A.Lopes, C.Fulton, B.Huang, Y.Podicheti, R.Rusch, D.Minasov, G.Shuvalova, L.Satchell, K.J.F.Rowe-Magnus, D.A.

(2026) Commun Biol 

  • DOI: https://doi.org/10.1038/s42003-025-09475-w
  • Primary Citation of Related Structures:  
    6VPW

  • PubMed Abstract: 

    Chemotaxis is an adaptive mechanism that shapes the behavior of motile bacteria in habitats characterized by fluctuating and often conflicting cues environmental (e.g. stay-or-go). Chemotactic responses are orchestrated by phosphorylation of CheY, which triggers rotational switching of the flagella. In Escherichia coli and similar taxa, CheZ is the principal CheY-P phosphatase, whereas in lineages lacking CheZ, members of the structurally distinct CheC-FliY-CheX family fulfill this role. Intriguingly, some bacteria code for CheX and CheZ, presenting a conundrum regarding their function, and the role of CheX in CheZ-containing organisms is unknown. We imposed a sustained motility constraint under conditions of looming nutrient depletion in Vibrio vulnificus, which possesses both CheX and CheZ, using the c-di-GMP effector PlzD that robustly curtails swimming motility. Our analyses revealed that the activity of CheX, but not CheZ, could be attenuated to mitigate the imposed constraint, assigning CheX a pivotal function in fine-tuning foraging behavior during a "stay-or-go" decision. V. vulnificus CheX maintained CheY-P phosphatase activity despite its conserved dimeric fold structure exhibiting divergence in active-site architecture, suggesting a preserved catalytic mechanism among distantly related homologs. Co-conservation of cheX and cheZ across disparate bacterial phyla suggests their adaptative retention confers robustness and versatility to chemotactic control.


  • Organizational Affiliation
    • Department of Biology, Indiana University Bloomington, Bloomington, IN, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chemotaxis protein CheX
A, B
155Vibrio vulnificus CMCP6Mutation(s): 0 
Gene Names: VV1_1397
UniProt
Find proteins for A0A3Q0L3P3 (Vibrio vulnificus (strain CMCP6))
Explore A0A3Q0L3P3 
Go to UniProtKB:  A0A3Q0L3P3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A3Q0L3P3
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.90 Å
  • R-Value Free:  0.225 (Depositor) 
  • R-Value Work:  0.174 (Depositor) 
  • R-Value Observed: 0.177 (Depositor) 
Space Group: P 41
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.093α = 90
b = 44.093β = 90
c = 143.062γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-3000data reduction
HKL-3000data scaling
PHASERphasing

Structure Validation

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Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2021-02-10
    Type: Initial release
  • Version 1.1: 2023-10-11
    Changes: Data collection, Database references, Refinement description
  • Version 1.2: 2024-10-16
    Changes: Structure summary
  • Version 1.3: 2026-01-28
    Changes: Database references