2JDH

Lectin PA-IIL of P.aeruginosa complexed with disaccharide derivative


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.131 
  • R-Value Work: 0.107 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

X-Ray Structures and Thermodynamics of the Interaction of Pa-Iil from Pseudomonas Aeruginosa with Disaccharide Derivatives.

Marotte, K.Sabin, C.Preville, C.Pymbock, M.Wimmerova, M.Mitchell, E.P.Imberty, A.Roy, R.

(2007) Chemmedchem 2: 1328

  • DOI: 10.1002/cmdc.200700100
  • Primary Citation of Related Structures:  
  • Also Cited By: 2VUC

  • PubMed Abstract: 
  • Pseudomonas aeruginosa is an opportunistic bacterium showing increasing resistance to antibiotics and consequently represents elevated threatening problems in hospital environments, particularly for cystic fibrosis patients. The use of glycomimetics ...

    Pseudomonas aeruginosa is an opportunistic bacterium showing increasing resistance to antibiotics and consequently represents elevated threatening problems in hospital environments, particularly for cystic fibrosis patients. The use of glycomimetics as an anti-adhesive strategy against microorganisms may complement the use of antibiotics. PA-IIL lectin (LecB) from P. aeruginosa constitutes an appealing target for antibacterial agents, as it has been proposed to play a key role in binding to airway epithelia and/or to be involved in biofilm formation. The lectin has an unusually high affinity for L-fucose and related oligosaccharides. In the work presented herein, the disaccharide alphaFuc1-4GlcNAc is used as a scaffold toward the synthesis of a series of glycomimetic derivatives. Microcalorimetry and structural studies indicate that several of the derivatives are potent inhibitors of the lectin, with affinity in the same range as the best known natural ligand, Lewis a, and could represent interesting leads for the development of future antibacterial compounds.


    Related Citations: 
    • Structural Basis for Oligosaccharide-Mediated Adhesion of Pseudomonas Aeruginosa in the Lungs of Cystic Fibrosis Patients
      Mitchell, E.,Houles, C.,Sudakevitz, D.,Wimmerova, M.,Gautier, C.,Perez, S.,Wu, A.,Gilboa-Garber, N.,Imberty, A.
      (2002) Nat.Struct.Mol.Biol. 9: 918
    • Structural Basis for the Interaction between Human Milk Oligosaccharides and the Bacterial Lectin Pa-Iil of Pseudomonas Aeruginosa.
      Perret, S.,Sabin, C.,Dumon, C.,Pokorna, M.,Gautier, C.,Galanina, O.,Ilia, S.,Bovin, N.,Nicaise, M.,Desmadril, M.,Gilboa-Garber, N.,Wimmerova, M.,Mitchell, E.,Imberty, A.
      (2005) Biochem J. 389: 325


    Organizational Affiliation

    Equipe PharmaQAM, Département de Chimie et de Biochimie, Université du Québec à Montréal, 8888, Succ. Centre-Ville, Montréal (Québec) H3C 3P8, Canada.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
FUCOSE-BINDING LECTIN PA-IIL
A, B, C, D
115Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)Mutation(s): 0 
Gene Names: lecB
Find proteins for Q9HYN5 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1))
Go to UniProtKB:  Q9HYN5
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
TA5
Query on TA5

Download SDF File 
Download CCD File 
B, C, D
2H-1,2,3-TRIAZOL-4-YLMETHANOL
C3 H5 N3 O
OADYBXHYXPEGHX-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
C
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
CA
Query on CA

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Download CCD File 
A, B, C, D
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
FUC
Query on FUC

Download SDF File 
Download CCD File 
A, B, C, D
ALPHA-L-FUCOSE
C6 H12 O5
SHZGCJCMOBCMKK-SXUWKVJYSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
B, C, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.1 Å
  • R-Value Free: 0.131 
  • R-Value Work: 0.107 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 52.552α = 90.00
b = 72.829β = 94.29
c = 54.359γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
MOSFLMdata reduction
MOLREPphasing
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-07-24
    Type: Initial release
  • Version 1.1: 2014-02-19
    Type: Database references, Derived calculations, Non-polymer description, Other, Structure summary, Version format compliance