5LFI | pdb_00005lfi

lactococcin A immunity protein

• PDB DOI: https://doi.org/10.2210/pdb5LFI/pdb
• BMRB: 34018

• Classification: IMMUNE SYSTEM
• Organism(s): Lactococcus lactis subsp. lactis
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-07-01 Released: 2016-11-16 
• Deposition Author(s): Persson, C., Fuochi, V., Pedersen, A., Karlsson, B.G., Nissen-Meyer, J., Kristiansen, P.E., Oppegard, C.

---

Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 16 
• Selection Criteria: target function 

Literature

Nuclear Magnetic Resonance Structure and Mutational Analysis of the Lactococcin A Immunity Protein.

Kristiansen, P.E., Persson, C., Fuochi, V., Pedersen, A., Karlsson, G.B., Nissen-Meyer, J., Oppegard, C.

(2016) Biochemistry 55: 6250-6257

• PubMed: 27808503 
• DOI: https://doi.org/10.1021/acs.biochem.6b00848
• Primary Citation Related Structures: 
  5LFI


• PubMed Abstract: 
  

  The class IId bacteriocin lactococcin A and the pediocin-like bacteriocins induce membrane leakage and cell death by specifically binding the mannose phophotransferase system (man-PTS) on their target cells. The bacteriocins' cognate immunity proteins that protect the producer cell from its own bacteriocin recognize and bind to the bacteriocin-man-PTS complex and thereby block membrane leakage. In this study, we have determined the three-dimensional structure of the lactococcin A immunity protein (LciA) by the use of nuclear magnetic resonance spectroscopy. LciA forms a four-helix bundle structure with a flexible C-terminal tail. Despite the low degree of sequence similarity between LciA and the pediocin-like immunity proteins, they share the same fold. However, there are certain differences between the structures. The C-terminal helix in LciA is considerably shorter than that observed in the pediocin-like immunity proteins, and the surface potentials of the immunity proteins differ. Truncated variants of LciA in which 6 or 10 of the C-terminal residues were removed yielded a reduced degree of protection, indicating that the unstructured C-terminal tail is important for the functionality of the immunity proteins.

---

Organizational Affiliation: 
• Department of Biosciences, Section for Biochemistry and Molecular Biology, University of Oslo , P.O. Box 1066, Blindern, 0316 Oslo, Norway.
Swedish NMR Centre, University of Gothenburg , P.O. Box 465, 405 30 Gothenburg, Sweden.
Department of Biomedical and Biotechnological Sciences (BIOMETEC), Microbiology Section, University of Catania , via Androne 81, 95124 Catania, Italy.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 13.27 kDa 
• Atom Count: 931 
• Modeled Residue Count: 117 
• Deposited Residue Count: 117 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lactococcin-A immunity protein	A	117	Lactococcus lactis subsp. lactis	Mutation(s): 0  Gene Names: lciA
UniProt
Find proteins for P0A3M7 (Lactococcus lactis subsp. lactis) Explore P0A3M7  Go to UniProtKB:  P0A3M7

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 16 
• Selection Criteria: target function 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2016-11-16 
Deposition Author(s): Persson, C., Fuochi, V., Pedersen, A., Karlsson, B.G., Nissen-Meyer, J., Kristiansen, P.E., Oppegard, C.

Revision History  

• Version 1.0: 2016-11-16
  Type: Initial release
  
• Version 1.1: 2016-12-21
  Changes: Database references
• Version 1.2: 2019-05-08
  Changes: Data collection
• Version 1.3: 2024-06-19
  Changes: Data collection, Database references