2BR6

Crystal Structure of Quorum-Quenching N-Acyl Homoserine Lactone Lactonase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.181 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The Molecular Structure and Catalytic Mechanism of a Quorum-Quenching N-Acyl-L-Homoserine Lactone Hydrolase.

Kim, M.H.Choi, W.C.Kang, H.O.Lee, J.S.Kang, B.S.Kim, K.J.Derewenda, Z.S.Oh, T.K.Lee, C.H.Lee, J.K.

(2005) Proc.Natl.Acad.Sci.USA 102: 17606

  • DOI: 10.1073/pnas.0504996102
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • In many Gram-negative bacteria, including a number of pathogens such as Pseudomonas aeruginosa and Erwinia carotovora, virulence factor production and biofilm formation are linked to the quorum-sensing systems that use diffusible N-acyl-L-homoserine ...

    In many Gram-negative bacteria, including a number of pathogens such as Pseudomonas aeruginosa and Erwinia carotovora, virulence factor production and biofilm formation are linked to the quorum-sensing systems that use diffusible N-acyl-L-homoserine lactones (AHLs) as intercellular messenger molecules. A number of organisms also contain genes coding for lactonases that hydrolyze AHLs into inactive products, thereby blocking the quorum-sensing systems. Consequently, these enzymes attract intense interest for the development of antiinfection therapies. However, the catalytic mechanism of AHL-lactonase is poorly understood and subject to controversy. We here report a 2.0-angstroms resolution structure of the AHL-lactonase from Bacillus thuringiensis and a 1.7-angstroms crystal structure of its complex with L-homoserine lactone. Despite limited sequence similarity, the enzyme shows remarkable structural similarities to glyoxalase II and RNase Z proteins, members of the metallo-beta-lactamase superfamily. We present experimental evidence that AHL-lactonase is a metalloenzyme containing two zinc ions involved in catalysis, and we propose a catalytic mechanism for bacterial metallo-AHL-lactonases.


    Related Citations: 
    • Crystallization and Preliminary Crystallographic Analysis of Bacillus Thuringiensis Ahl-Lactonase.
      Kim, M.H.,Kang, H.O.,Kang, B.S.,Kim, K.J.,Choi, W.C.,Oh, T.K.,Lee, C.H.,Lee, J.K.
      (2005) Biochim.Biophys.Acta 1750: 5


    Organizational Affiliation

    Korea Research Institute of Bioscience and Biotechnology, Yusong, Daejon 305-600, Korea.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
AIIA-LIKE PROTEIN
A
252Bacillus thuringiensis subsp. kurstakiMutation(s): 0 
Gene Names: aiiA
EC: 3.1.1.81
Find proteins for P0CJ63 (Bacillus thuringiensis subsp. kurstaki)
Go to UniProtKB:  P0CJ63
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
GOL
Query on GOL

Download SDF File 
Download CCD File 
A
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
HSL
Query on HSL

Download SDF File 
Download CCD File 
A
HOMOSERINE LACTONE
C4 H7 N O2
QJPWUUJVYOJNMH-VKHMYHEASA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
HSLKi: 1100000 nM BINDINGMOAD
HSLKi: 1100000 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.220 
  • R-Value Work: 0.181 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 51.904α = 90.00
b = 55.745β = 90.00
c = 73.855γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-12-07
    Type: Initial release
  • Version 1.1: 2011-05-08
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance