Macromolecule Content

• Total Structure Weight: 4974.49 
• Atom Count: 349 
• Residue Count: 48 
• Unique protein chains: 1

1CW5

SOLUTION STRUCTURE OF CARNOBACTERIOCIN B2

• DOI: 10.2210/pdb1CW5/pdb
• BMRB: 4506

• Classification: TOXIN
• Organism(s): Carnobacterium maltaromaticum


• Deposited: 1999-08-25 Released: 1999-09-07 
• Deposition Author(s): Wang, Y., Henz, M.E., Gallagher, N.L.F., Chai, S., Yan, L.Z., Gibbs, A.C., Stiles, M.E., Wishart, D.S., Vederas, J.C.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 20 
• Selection Criteria: STRUCTURES WITH ACCEPTABLE COVALENT GEOMETRY,STRUCTURES WITH FAVORABLE NON- BOND ENERGY,STRUCTURES WITH THE LEAST RESTRAINT VIOLATIONS,STRUCTURES WITH THE LOWEST ENERGY 

Literature

Solution structure of carnobacteriocin B2 and implications for structure-activity relationships among type IIa bacteriocins from lactic acid bacteria.

Wang, Y., Henz, M.E., Gallagher, N.L., Chai, S., Gibbs, A.C., Yan, L.Z., Stiles, M.E., Wishart, D.S., Vederas, J.C.

(1999) Biochemistry 38: 15438-15447

• PubMed: 10569926 
• Primary Citation of Related Structures:  
  1CW6


• PubMed Abstract: 
  

Carnobacteriocin B2 (CbnB2), a type IIa bacteriocin, is a 48 residue antimicrobial peptide from the lactic acid bacterium Carnobacterium pisicola LV17B. Type IIa bacteriocins have a conserved YGNGVXC sequence near the N-terminus and usually contain a disulfide bridge. CbnB2 seemed to be unique in that its two cysteines (Cys9 and Cys14) could be isolated as free thiols [Quadri et al. (1994) J. Biol. Chem. 26, 12204-12211]. To establish the structural consequences of the presence or absence of a disulfide bridge and to investigate if the YGNGVXC sequence is a receptor-binding motif [Fleury et al. (1996) J. Biol. Chem. 271, 14421-14429], the three-dimensional solution structure of CbnB2 was determined by two-dimensional (1)H nuclear magnetic resonance (NMR) techniques. Mass spectroscopic and thiol modification experiments on CbnB2 and on model peptides, in conjunction with activity measurements, were used to verify the redox status of CbnB2. The results show that CbnB2 readily forms a disulfide bond and that this peptide has full antimicrobial activity. NMR results indicate that CbnB2 in trifluoroethanol (TFE) has a well-defined central helical structure (residues 18-39) but a disordered N terminus. Comparison of the CbnB2 structure with the refined solution structure of leucocin A (LeuA), another type IIa bacteriocin, indicates that the central helical structure is conserved between the two peptides despite differences in sequence but that the N-terminal structure (a proposed receptor binding site) is not. This is unexpected because LeuA and CbnB2 exhibit >66% sequence identity in the first 24 residues. This suggests that the N-terminus, which had been proposed [Fleury et al. (1996) J. Biol. Chem. 271, 14421-14429] to be a receptor binding site of type IIa bacteriocins, may not be directly involved and that recognition of the amphiphilic helical portion is the critical feature.

---

Organizational Affiliation: 

Faculty of Pharmacy and Pharmaceutical Sciences, Department of Chemistry, University of Alberta, Edmonton, Canada.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
TYPE IIA BACTERIOCIN CARNOBACTERIOCIN B2	A	48	Carnobacterium maltaromaticum	Mutation(s): 0  Gene Names: cbnB2 (canCP52)
Find proteins for P38580 (Carnobacterium maltaromaticum) Go to UniProtKB:  P38580

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 30 
• Conformers Submitted: 20 
• Selection Criteria: STRUCTURES WITH ACCEPTABLE COVALENT GEOMETRY,STRUCTURES WITH FAVORABLE NON- BOND ENERGY,STRUCTURES WITH THE LEAST RESTRAINT VIOLATIONS,STRUCTURES WITH THE LOWEST ENERGY 
• Olderado: 1CW5 Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-08-25 
• Released Date: 1999-09-07 
• Deposition Author(s): Wang, Y., Henz, M.E., Gallagher, N.L.F., Chai, S., Yan, L.Z., Gibbs, A.C., Stiles, M.E., Wishart, D.S., Vederas, J.C.

Revision History 

• Version 1.0: 1999-09-07
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance