Crystal structure of the catalytic domain of C. glutamicum AceF (E2p) in ternary complex with CoA and dihydrolipoamide.

Experimental Data Snapshot

  • Resolution: 2.09 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.164 
  • R-Value Observed: 0.164 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


Actinobacteria challenge the paradigm: A unique protein architecture for a well-known, central metabolic complex.

Bruch, E.M.Vilela, P.Yang, L.Boyko, A.Lexa-Sapart, N.Raynal, B.Alzari, P.M.Bellinzoni, M.

(2021) Proc Natl Acad Sci U S A 118

  • DOI: https://doi.org/10.1073/pnas.2112107118
  • Primary Citation of Related Structures:  
    6ZZI, 6ZZJ, 6ZZK, 6ZZL, 6ZZM, 6ZZN

  • PubMed Abstract: 

    α-oxoacid dehydrogenase complexes are large, tripartite enzymatic machineries carrying out key reactions in central metabolism. Extremely conserved across the tree of life, they have been, so far, all considered to be structured around a high-molecular weight hollow core, consisting of up to 60 subunits of the acyltransferase component. We provide here evidence that Actinobacteria break the rule by possessing an acetyltranferase component reduced to its minimally active, trimeric unit, characterized by a unique C-terminal helix bearing an actinobacterial specific insertion that precludes larger protein oligomerization. This particular feature, together with the presence of an odhA gene coding for both the decarboxylase and the acyltransferase domains on the same polypetide, is spread over Actinobacteria and reflects the association of PDH and ODH into a single physical complex. Considering the central role of the pyruvate and 2-oxoglutarate nodes in central metabolism, our findings pave the way to both therapeutic and metabolic engineering applications.

  • Organizational Affiliation

    Unité de Microbiologie Structurale, Institut Pasteur, CNRS, Université de Paris, 75015 Paris, France; eduardo.bruch@sanofi.com marco.bellinzoni@pasteur.fr.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex
A, B
241Corynebacterium glutamicum ATCC 13032Mutation(s): 0 
Gene Names: aceFsucBCgl2207cg2421
Find proteins for Q8NNJ2 (Corynebacterium glutamicum (strain ATCC 13032 / DSM 20300 / BCRC 11384 / JCM 1318 / LMG 3730 / NCIMB 10025))
Explore Q8NNJ2 
Go to UniProtKB:  Q8NNJ2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8NNJ2
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.09 Å
  • R-Value Free: 0.172 
  • R-Value Work: 0.164 
  • R-Value Observed: 0.164 
  • Space Group: P 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 132.127α = 90
b = 132.127β = 90
c = 132.127γ = 90
Software Package:
Software NamePurpose
autoPROCdata reduction
XDSdata reduction
autoPROCdata scaling
Aimlessdata scaling

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-13-JSV8-0003

Revision History  (Full details and data files)

  • Version 1.0: 2021-08-18
    Type: Initial release
  • Version 1.1: 2021-12-08
    Changes: Database references
  • Version 1.2: 2021-12-15
    Changes: Structure summary
  • Version 1.3: 2024-01-31
    Changes: Data collection, Refinement description