Biological Assembly 1  

 3D View: Structure

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 11.29 kDa 
• Atom Count: 789 
• Residue Count: 102 
• Unique protein chains: 1

2KKX

Solution Structure of C-terminal domain of reduced NleG2-3 (residues 90-191) from Pathogenic E. coli O157:H7. Northeast Structural Genomics Consortium and Midwest Center for Structural Genomics target ET109A

• DOI: 10.2210/pdb2KKX/pdb
• BMRB: 16374

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Escherichia coli O157:H7
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-06-29 Released: 2009-08-25 
• Deposition Author(s): Wu, B., Yee, A., Fares, C., Lemak, A., Semest, A., Claude, M., Singer, A., Edwards, A., Savchenko, A., Montelione, G.T., Joachimiak, A., Arrowsmith, C.H., Northeast Structural Genomics Consortium (NESG), Ontario Centre for Structural Proteomics (OCSP), Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

NleG Type 3 effectors from enterohaemorrhagic Escherichia coli are U-Box E3 ubiquitin ligases.

Wu, B., Skarina, T., Yee, A., Jobin, M.C., Dileo, R., Semesi, A., Fares, C., Lemak, A., Coombes, B.K., Arrowsmith, C.H., Singer, A.U., Savchenko, A.

(2010) PLoS Pathog 6: e1000960-e1000960

• PubMed: 20585566 
• DOI: 10.1371/journal.ppat.1000960
• Primary Citation of Related Structures:  
  2KKY, 2KKX


• PubMed Abstract: 
  

NleG homologues constitute the largest family of Type 3 effectors delivered by pathogenic E. coli, with fourteen members in the enterohaemorrhagic (EHEC) O157:H7 strain alone. Identified recently as part of the non-LEE-encoded (Nle) effector set, this family remained uncharacterised and shared no sequence homology to other proteins including those of known function. The C-terminal domain of NleG2-3 (residues 90 to 191) is the most conserved region in NleG proteins and was solved by NMR. Structural analysis of this structure revealed the presence of a RING finger/U-box motif. Functional assays demonstrated that NleG2-3 as well as NleG5-1, NleG6-2 and NleG9' family members exhibited a strong autoubiquitination activity in vitro; a characteristic usually expressed by eukaryotic ubiquitin E3 ligases. When screened for activity against a panel of 30 human E2 enzymes, the NleG2-3 and NleG5-1 homologues showed an identical profile with only UBE2E2, UBE2E3 and UBE2D2 enzymes supporting NleG activity. Fluorescence polarization analysis yielded a binding affinity constant of 56+/-2 microM for the UBE2D2/NleG5-1 interaction, a value comparable with previous studies on E2/E3 affinities. The UBE2D2 interaction interface on NleG2-3 defined by NMR chemical shift perturbation and mutagenesis was shown to be generally similar to that characterised for human RING finger ubiquitin ligases. The alanine substitutions of UBE2D2 residues Arg5 and Lys63, critical for activation of eukaryotic E3 ligases, also significantly decreased both NleG binding and autoubiquitination activity. These results demonstrate that bacteria-encoded NleG effectors are E3 ubiquitin ligases analogous to RING finger and U-box enzymes in eukaryotes.

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Related Citations: 

• A novel strategy for NMR resonance assignment and protein structure determination.
  Lemak, A., Gutmanas, A., Chitayat, S., Karra, M., Fares, C., Sunnerhagen, M., Arrowsmith, C.H.
  (2011) J Biomol NMR 49: 27

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Organizational Affiliation: 

Division of Cancer Genomics and Proteomics, Ontario Cancer Institute, Toronto, Ontario, Canada.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized protein ECs2156	A	102	Escherichia coli O157:H7	Mutation(s): 0  Gene Names:  ECs2156, Z2149, nleG2-3, E3150_16055, E3151_14855, E3152_13805, E3153_13180, E3154_13225, E3159_13470, E3160_14340, E3161_13465, E3162_14670, E3163_13180, E3164_13985, E3166_14775, E3167_13580, E3168_13160, E3169_14070, E3170_13610, E4T53_15255, E4U08_16305, E4U62_13330, E4U63_14790, E4U64_13940, E4U65_15295, E4U66_15655, E4U67_13625, E4U68_14920, E4U69_15000, E4U70_14655, E4U72_14270, E4U73_14700, E4U74_13160, E4U76_15365, E4U77_14655, E4U78_15190, E4U79_13980, E4U80_13940, E4U81_14240, E4U84_14340, E4U86_14990, E4U87_15660, E4U89_15010, E4U90_13945, ECs_2156, EVY27_27655, FCV42_13860, FDZ86_15290
Find proteins for Q8X509 (Escherichia coli O157:H7) Explore Q8X509  Go to UniProtKB:  Q8X509

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 100 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2KKX Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-06-29 
• Released Date: 2009-08-25 
Deposition Author(s): Wu, B., Yee, A., Fares, C., Lemak, A., Semest, A., Claude, M., Singer, A., Edwards, A., Savchenko, A., Montelione, G.T., Joachimiak, A., Arrowsmith, C.H., Northeast Structural Genomics Consortium (NESG), Ontario Centre for Structural Proteomics (OCSP), Midwest Center for Structural Genomics (MCSG)

Revision History 

• Version 1.0: 2009-08-25
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2012-01-18
  Changes: Database references
• Version 1.3: 2018-01-24
  Changes: Structure summary
• Version 1.4: 2020-02-26
  Changes: Data collection, Database references, Other