5UJR

NMR Solution Structure of the Two-component Bacteriocin CbnXY

• PDB DOI: https://doi.org/10.2210/pdb5UJR/pdb
• BMRB: 30236

• Classification: ANTIMICROBIAL PROTEIN
• Organism(s): Carnobacterium maltaromaticum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2017-01-18 Released: 2017-11-29 
• Deposition Author(s): Acedo, J.Z., Towle, K.M., Lohans, C.T., McKay, R.T., Miskolzie, M., Doerksen, T., Vederas, J.C., Martin-Visscher, L.A.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Identification and three-dimensional structure of carnobacteriocin XY, a class IIb bacteriocin produced by Carnobacteria.

Acedo, J.Z., Towle, K.M., Lohans, C.T., Miskolzie, M., McKay, R.T., Doerksen, T.A., Vederas, J.C., Martin-Visscher, L.A.

(2017) FEBS Lett 591: 1349-1359

• PubMed: 28391617 
• DOI: https://doi.org/10.1002/1873-3468.12648
• Primary Citation of Related Structures:  
  5UJQ, 5UJR


• PubMed Abstract: 
  

  In this study, we report that CbnX (33 residues) and CbnY (29 residues) comprise a class IIb (two-component) bacteriocin in Carnobacteria. Individually, CbnX and CbnY are inactive, but together act synergistically to exert a narrow spectrum of activity. The structures of CbnX and CbnY in structure-inducing conditions were determined and strongly resemble other class IIb bacteriocins (i.e., LcnG, PlnEF, PlnJK). CbnX has an extended, amphipathic α-helix and a flexible C terminus. CbnY has two α-helices (one hydrophobic, one amphipathic) connected by a short loop and a cationic C terminus. CbnX and CbnY do not appear to interact directly and likely require a membrane-bound receptor to facilitate formation of the bacteriocin complex. This is the first class IIb bacteriocin reported for Carnobacteria.

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Organizational Affiliation: 

Department of Chemistry, University of Alberta, Edmonton, AB, Canada.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 3.59 kDa 
• Atom Count: 253 
• Modelled Residue Count: 33 
• Deposited Residue Count: 33 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacteriocin	A	33	Carnobacterium maltaromaticum	Mutation(s): 0
UniProt
Find proteins for Q46313 (Carnobacterium maltaromaticum) Explore Q46313  Go to UniProtKB:  Q46313

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-11-29 
Deposition Author(s): Acedo, J.Z., Towle, K.M., Lohans, C.T., McKay, R.T., Miskolzie, M., Doerksen, T., Vederas, J.C., Martin-Visscher, L.A.

Revision History  

• Version 1.0: 2017-11-29
  Type: Initial release
  
• Version 1.1: 2018-01-17
  Changes: Author supporting evidence
• Version 1.2: 2023-06-14
  Changes: Database references, Other
• Version 1.3: 2024-05-15
  Changes: Data collection, Database references