9X97 | pdb_00009x97

Cryo-EM Structure of G6PT1 bound with upper pi


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.89 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Structures of human glucose-6-phosphate transporter reveal reciprocal antiport mechanism driving glucose-6-phosphate and inorganic phosphate exchange.

Wang, Q.Guo, N.Du, Y.Liu, J.Ai, W.Yang, F.Zhu, Y.Zhao, Y.Wu, D.Liu, L.Yao, X.Gao, S.

(2025) Nat Commun 

  • DOI: https://doi.org/10.1038/s41467-025-66386-4
  • Primary Citation of Related Structures:  
    9UGU, 9UGX, 9UGY, 9WS8, 9WT2, 9X8X, 9X95, 9X97

  • PubMed Abstract: 

    Glucose-6-phosphate transporter 1 (G6PT1) is essential for systemic glucose homeostasis, and its deficiency causes glycogen storage disease type 1b (GSD1b). G6PT1 functions as a sugar-phosphate/inorganic phosphate (Pi) antiporter, orchestrating G6P transport into the endoplasmic reticulum lumen driven by a Pi gradient. Despite its physiological significance, the molecular mechanisms underlying substrate recognition and antiport activity remain poorly characterized. Here, we present cryo-electron microscopy structures of human G6PT1 in apo, Pi-bound, and GlcN6P-bound (a G6P analogue) states, all captured in cytosol-open conformations. Combined with molecular docking and functional assays, these structures elucidate the molecular basis for Pi and G6P recognition in G6PT1. Comparative analysis reveals that Pi binding triggers an interdomain salt bridge formation, resulting in a thicker luminal gate and a more compact central cavity for G6P binding. In addition to the monomer, we identify a dimeric assembly of G6PT1. Mutating key residues at the dimer interface impairs transport activity, suggesting a regulatory role for oligomerization. Our findings thus provide a mechanistic framework for understanding G6PT1 working mechanism and its pathological dysregulation in GSD1b.


  • Organizational Affiliation
    • Department of Urology, Zhongnan Hospital of Wuhan University, State Key Laboratory of Metabolism and Regulation in Complex Organisms, School of Pharmaceutical Sciences, Wuhan University, Wuhan, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glucose-6-phosphate exchanger SLC37A4A,
B [auth C]
429Homo sapiensMutation(s): 0 
Gene Names: SLC37A4G6PTG6PT1PRO0685TRG19
UniProt & NIH Common Fund Data Resources
Find proteins for O43826 (Homo sapiens)
Explore O43826 
Go to UniProtKB:  O43826
PHAROS:  O43826
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO43826
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.89 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China22477098

Revision History  (Full details and data files)

  • Version 1.0: 2026-01-07
    Type: Initial release