Biological Assembly 1  

 3D View: Structure | 1D-3D View | Validation Report

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 3.42 kDa 
• Atom Count: 240 
• Modelled Residue Count: 30 
• Deposited Residue Count: 30 
• Unique protein chains: 1

2MLV

Structure of the antimicrobial peptide LsbB in TFE/water

• PDB DOI: 10.2210/pdb2MLV/pdb
• BMRB: 19833

• Classification: ANTIMICROBIAL PROTEIN
• Organism(s): Lactococcus lactis subsp. lactis
• Mutation(s): No 


• Deposited: 2014-03-05 Released: 2014-07-16 
• Deposition Author(s): Kristiansen, P., Ovchinnikov, K., Diep, D.

---

Experimental Data Snapshot

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

Literature

Defining the Structure and Receptor Binding Domain of the Leaderless Bacteriocin LsbB.

Ovchinnikov, K.V., Kristiansen, P.E., Uzelac, G., Topisirovic, L., Kojic, M., Nissen-Meyer, J., Nes, I.F., Diep, D.B.

(2014) J Biol Chem 289: 23838-23845

• PubMed: 24993828 
• DOI: 10.1074/jbc.M114.579698
• Primary Citation of Related Structures:  
  2MLU, 2MLV


• PubMed Abstract: 
  

LsbB is a class II leaderless lactococcal bacteriocin of 30 amino acids. In the present work, the structure and function relationship of LsbB was assessed. Structure determination by NMR spectroscopy showed that LsbB has an N-terminal α-helix, whereas the C-terminal of the molecule remains unstructured. To define the receptor binding domain of LsbB, a competition assay was performed in which a systematic collection of truncated peptides of various lengths covering different parts of LsbB was used to inhibit the antimicrobial activity of LsbB. The results indicate that the outmost eight-amino acid sequence at the C-terminal end is likely to contain the receptor binding domain because only truncated fragments from this region could antagonize the antimicrobial activity of LsbB. Furthermore, alanine substitution revealed that the tryptophan in position 25 (Trp(25)) is crucial for the blocking activity of the truncated peptides, as well as for the antimicrobial activity of the full-length bacteriocin. LsbB shares significant sequence homology with five other leaderless bacteriocins, especially at their C-terminal halves where all contain a conserved KXXXGXXPWE motif, suggesting that they might recognize the same receptor as LsbB. This notion was supported by the fact that truncated peptides with sequences derived from the C-terminal regions of two LsbB-related bacteriocins inhibited the activity of LsbB, in the same manner as found with the truncated version of LsbB. Taken together, these structure-function studies provide strong evidence that the receptor-binding parts of LsbB and sequence-related bacteriocins are located in their C-terminal halves.

---

Organizational Affiliation: 

From the Department of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, 1432 Ås, Norway, [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
LsbB	A	30	Lactococcus lactis subsp. lactis	Mutation(s): 0  Gene Names: lsbB
UniProt
Find proteins for Q7X2B5 (Lactococcus lactis subsp. lactis) Explore Q7X2B5  Go to UniProtKB:  Q7X2B5

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2MLV Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-03-05 
• Released Date: 2014-07-16 
Deposition Author(s): Kristiansen, P., Ovchinnikov, K., Diep, D.

Revision History  

• Version 1.0: 2014-07-16
  Type: Initial release
  
• Version 1.1: 2014-07-23
  Changes: Database references
• Version 1.2: 2014-09-10
  Changes: Database references