3UW0

Pectin methylesterase from Yersinia enterocolitica

• PDB DOI: https://doi.org/10.2210/pdb3UW0/pdb

• Classification: HYDROLASE
• Organism(s): Yersinia enterocolitica subsp. enterocolitica 8081
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-11-30 Released: 2012-02-08 
• Deposition Author(s): Abbott, D.W., Boraston, A.B.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 0.245 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 

Literature

Structure of a pectin methylesterase from Yersinia enterocolitica.

Boraston, A.B., Abbott, D.W.

(2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68: 129-133

• PubMed: 22297983 
• DOI: https://doi.org/10.1107/S1744309111055400
• Primary Citation of Related Structures:  
  3UW0


• PubMed Abstract: 
  

  Pectin methylesterases (PMEs) are family 8 carbohydrate esterases (CE8s) which remove the methyl group from methylesterified galacturonic acid (GalA) residues within pectin. Although the role of pectinases such as PMEs within dedicated phytopathogens has been well established, the significance of homologous enzymes found within the genomes of human enteropathogens remains to be determined. Presented here is the low-resolution (3.5 Å) structure of the CE8 from Yersinia enterocolitica (YeCE8). The high degree of structural conservation in the topology of the active-site cleft and catalytic apparatus that is shared with a characterized PME from a bacterial phytopathogen (i) indicates that YeCE8 is active on methylated pectin and (ii) highlights a more prominent role for pectin utilization in Yersinia than in other enteropathogenic species.

---

Organizational Affiliation: 

Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC, Canada.

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: 39.78 kDa 
• Atom Count: 2,425 
• Modelled Residue Count: 320 
• Deposited Residue Count: 364 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
pectinesterase	A	364	Yersinia enterocolitica subsp. enterocolitica 8081	Mutation(s): 0  Gene Names: YE0549 EC: 3.1.1.11
UniProt
Find proteins for A1JJ76 (Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)) Explore A1JJ76  Go to UniProtKB:  A1JJ76

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 0.245 
• R-Value Work: 0.195 
• R-Value Observed: 0.198 
• Space Group: P 4₃ 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 170.64	α = 90
b = 170.64	β = 90
c = 170.64	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
MOLREP	phasing
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-02-08 
Deposition Author(s): Abbott, D.W., Boraston, A.B.

Revision History  

• Version 1.0: 2012-02-08
  Type: Initial release
  
• Version 1.1: 2012-03-28
  Changes: Database references
• Version 1.2: 2023-09-13
  Changes: Data collection, Database references, Refinement description