2G0D | pdb_00002g0d

Nisin cyclase

• PDB DOI: https://doi.org/10.2210/pdb2G0D/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Lactococcus lactis subsp. lactis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2006-02-12 Released: 2006-05-23 
• Deposition Author(s): Nair, S.K.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free: 
  0.233 (Depositor), 0.235 (DCC) 
• R-Value Work: 
  0.186 (Depositor), 0.188 (DCC) 
• R-Value Observed: 
  0.190 (Depositor) 

Literature

Structure and mechanism of the lantibiotic cyclase involved in nisin biosynthesis

Li, B., Yu, J.P.J., Brunzelle, J.S., Moll, G.N., Van der Donk, W.A., Nair, S.K.

(2006) Science 311: 1464-1467

• PubMed: 16527981 
• DOI: https://doi.org/10.1126/science.1121422
• Primary Citation Related Structures: 
  2G02, 2G0D


• PubMed Abstract: 
  

  Nisin is a posttranslationally modified antimicrobial peptide that is widely used as a food preservative. It contains five cyclic thioethers of varying sizes that are installed by a single enzyme, NisC. Reported here are the in vitro reconstitution of the cyclization process and the x-ray crystal structure of the NisC enzyme. The structure reveals similarities in fold and substrate activation with mammalian farnesyl transferases, suggesting that human homologs of NisC posttranslationally modify a cysteine of a protein substrate.

---

Organizational Affiliation: 
• Department of Biochemistry, University of Illinois at Urbana-Champaign, 600 South Mathews Avenue, Urbana, IL 61801, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 46.86 kDa 
• Atom Count: 3,485 
• Modeled Residue Count: 404 
• Deposited Residue Count: 409 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Nisin biosynthesis protein nisC	A	409	Lactococcus lactis subsp. lactis	Mutation(s): 0  Gene Names: nisC
UniProt
Find proteins for Q03202 (Lactococcus lactis subsp. lactis) Explore Q03202  Go to UniProtKB:  Q03202

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free:  0.233 (Depositor), 0.235 (DCC) 
• R-Value Work:  0.186 (Depositor), 0.188 (DCC) 
• R-Value Observed: 0.190 (Depositor) 

Space Group: I 4₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 154.852	α = 90
b = 154.852	β = 90
c = 50.798	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-05-23 
Deposition Author(s): Nair, S.K.

Revision History  

• Version 1.0: 2006-05-23
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2024-02-14
  Changes: Data collection, Database references, Derived calculations