9G7F | pdb_00009g7f

Cryo-EM structure of Acetyl-coenzyme A synthetase (AcsA) dimer


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Regulation of acetyl-CoA biosynthesis via an intertwined acetyl-CoA synthetase/acetyltransferase complex.

Zheng, L.Du, Y.Steinchen, W.Girbig, M.Abendroth, F.Jalomo-Khayrova, E.Bedrunka, P.Bekeredjian-Ding, I.Mais, C.N.Hochberg, G.K.A.Freitag, J.Bange, G.

(2025) Nat Commun 16: 2557-2557

  • DOI: https://doi.org/10.1038/s41467-025-57842-2
  • Primary Citation of Related Structures:  
    9G79, 9G7F

  • PubMed Abstract: 

    Acetyl-CoA synthetase (Acs) generates acetyl-coenzyme A (Ac-CoA) but its excessive activity can deplete ATP and lead to a growth arrest. To prevent this, Acs is regulated through Ac-CoA-dependent feedback inhibition executed by Ac-CoA-dependent acetyltransferases such as AcuA in Bacillus subtilis. AcuA acetylates the catalytic lysine of AcsA turning the synthetase inactive. Here, we report that AcuA and AcsA form a tightly intertwined complex - the C-terminal domain binds to acetyltransferase domain of AcuA, while the C-terminus of AcuA occupies the CoA-binding site in the N-terminal domain of AcsA. Formation of the complex reduces AcsA activity in addition to the well-established acetylation of the catalytic lysine 549 in AcsA which we show can disrupt the complex. Thus, different modes of regulation accomplished through AcuA adjust AcsA activity to the concentrations of the different substrates of the reaction. In summary, our study provides detailed mechanistic insights into the regulatory framework underlying acetyl-CoA biosynthesis from acetate.


  • Organizational Affiliation
    • Max-Planck Institute for Terrestrial Microbiology, Marburg, Germany. Liujuan.Zheng@mpi-marburg.mpg.de.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Acetyl-coenzyme A synthetaseA [auth B],
B [auth A]
572Bacillus subtilisMutation(s): 0 
Gene Names: acsABSU29680
EC: 6.2.1.1
UniProt
Find proteins for P39062 (Bacillus subtilis (strain 168))
Explore P39062 
Go to UniProtKB:  P39062
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39062
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Acetoin utilization protein AcuA210Bacillus subtilisMutation(s): 0 
Gene Names: acuABSU29690
EC: 2.3.1
UniProt
Find proteins for P39065 (Bacillus subtilis (strain 168))
Explore P39065 
Go to UniProtKB:  P39065
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP39065
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIXdev_4620:

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research Foundation (DFG)Germany324652314
Leverhulme TrustUnited KingdomECF-2022-525
Wellcome TrustUnited KingdomWT096570
Medical Research Council (MRC, United Kingdom)United KingdomMC_U105184332

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-16
    Type: Initial release