3B8O | pdb_00003b8o

Structure of WzzE- Bacterial Polysaccharide Co-polymerase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 
    0.266 (Depositor), 0.276 (DCC) 
  • R-Value Work: 
    0.223 (Depositor), 0.235 (DCC) 
  • R-Value Observed: 
    0.225 (Depositor) 

wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history

Literature

Bacterial polysaccharide co-polymerases share a common framework for control of polymer length

Tocilj, A.Munger, C.Proteau, A.Morona, R.Purins, L.Ajamian, E.Wagner, J.Papadopoulos, M.Van Den Bosch, L.Rubinstein, J.L.Fethiere, J.Matte, A.Cygler, M.

(2008) Nat Struct Mol Biol 15: 130-138

  • DOI: https://doi.org/10.1038/nsmb.1374
  • Primary Citation Related Structures: 
    3B8M, 3B8N, 3B8O, 3B8P

  • PubMed Abstract: 

    The chain length distribution of complex polysaccharides present on the bacterial surface is determined by polysaccharide co-polymerases (PCPs) anchored in the inner membrane. We report crystal structures of the periplasmic domains of three PCPs that impart substantially different chain length distributions to surface polysaccharides. Despite very low sequence similarities, they have a common protomer structure with a long central alpha-helix extending 100 A into the periplasm. The protomers self-assemble into bell-shaped oligomers of variable sizes, with a large internal cavity. Electron microscopy shows that one of the full-length PCPs has a similar organization as that observed in the crystal for its periplasmic domain alone. Functional studies suggest that the top of the PCP oligomers is an important region for determining polysaccharide modal length. These structures provide a detailed view of components of the bacterial polysaccharide assembly machinery.


  • Organizational Affiliation
    • Department of Biochemistry, McGill University, 3655 Promenade Sir William Osler, Montréal, Québec H3G 1Y6, Canada.

Macromolecule Content 

  • Total Structure Weight: 247.31 kDa 
  • Atom Count: 14,771 
  • Modeled Residue Count: 1,768 
  • Deposited Residue Count: 2,120 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Lipopolysaccharide biosynthesis protein wzzE
A, B, C, D, E
A, B, C, D, E, F, G, H
265Escherichia coli O157:H7Mutation(s): 0 
Gene Names: wzzEwzz
UniProt
Find proteins for P0AG01 (Escherichia coli O157:H7)
Explore P0AG01 
Go to UniProtKB:  P0AG01
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0AG01
Sequence Annotations
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Reference Sequence

Small Molecules

Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D, E
A, B, C, D, E, F, G, H
L-PEPTIDE LINKINGC5 H11 N O2 SeMET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free:  0.266 (Depositor), 0.276 (DCC) 
  • R-Value Work:  0.223 (Depositor), 0.235 (DCC) 
  • R-Value Observed: 0.225 (Depositor) 
Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 107.438α = 90
b = 108.299β = 102.15
c = 122.569γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
SHARPphasing
RESOLVEphasing
REFMACrefinement
PDB_EXTRACTdata extraction
DENZOdata reduction

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2008-01-22
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Advisory, Derived calculations, Source and taxonomy, Version format compliance
  • Version 1.2: 2012-04-18
    Changes: Derived calculations
  • Version 1.3: 2017-10-25
    Changes: Refinement description
  • Version 1.4: 2024-10-16
    Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary