Cryo-EM structure of human pyruvate carboxylase with acetyl-CoA in the intermediate state 1

Experimental Data Snapshot

  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

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Mechanistic insight into allosteric activation of human pyruvate carboxylase by acetyl-CoA.

Chai, P.Lan, P.Li, S.Yao, D.Chang, C.Cao, M.Shen, Y.Ge, S.Wu, J.Lei, M.Fan, X.

(2022) Mol Cell 82: 4116-4130.e6

  • DOI: https://doi.org/10.1016/j.molcel.2022.09.033
  • Primary Citation of Related Structures:  
    7WTA, 7WTB, 7WTC, 7WTD, 7WTE

  • PubMed Abstract: 

    Pyruvate carboxylase (PC) catalyzes the two-step carboxylation of pyruvate to produce oxaloacetate, playing a key role in the maintenance of metabolic homeostasis in cells. Given its involvement in multiple diseases, PC has been regarded as a potential therapeutic target for obesity, diabetes, and cancer. Albeit acetyl-CoA has been recognized as the allosteric regulator of PC for over 60 years, the underlying mechanism of how acetyl-CoA induces PC activation remains enigmatic. Herein, by using time-resolved cryo-electron microscopy, we have captured the snapshots of PC transitional states during its catalytic cycle. These structures and the biochemical studies reveal that acetyl-CoA stabilizes PC in a catalytically competent conformation, which triggers a cascade of events, including ATP hydrolysis and the long-distance communication between the two reactive centers. These findings provide an integrated picture for PC catalysis and unveil the unique allosteric mechanism of acetyl-CoA in an essential biochemical reaction in all kingdoms of life.

  • Organizational Affiliation

    Department of Ophthalmology, Ninth People's Hospital, Shanghai Jiao Tong University School of Medicine, Shanghai 200011, People's Republic of China; Shanghai Key Laboratory of Orbital Diseases and Ocular Oncology, Shanghai 200011, People's Republic of China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Pyruvate carboxylase, mitochondrial
A, B, C, D
1,178Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P11498 (Homo sapiens)
Explore P11498 
Go to UniProtKB:  P11498
PHAROS:  P11498
GTEx:  ENSG00000173599 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP11498
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-09
    Type: Initial release
  • Version 1.1: 2022-11-16
    Changes: Database references