9KV0 | pdb_00009kv0

Cryo-EM structure of human G6PT in complex with chlorogenic acid


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 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

Structural basis for transport and inhibition of the human glucose-6-phosphate transporter G6PT.

Xia, Z.Wang, Y.Wu, D.Chi, C.Li, C.Chen, L.Jiang, D.

(2025) Nat Commun 16: 9420-9420

  • DOI: https://doi.org/10.1038/s41467-025-64464-1
  • Primary Citation of Related Structures:  
    9KUY, 9KV0, 9KVV

  • PubMed Abstract: 

    The human glucose-6-phosphate transporter (G6PT) moves glucose-6-phosphate (G6P) into the lumen of endoplasmic reticulum, playing a vital role in glucose homeostasis. Dysregulation of G6PT causes glycogen storage disease 1b. Despite its functional importance, the structure, G6P recognition, and inhibition mechanism of G6PT remain unclear. Here, we report the cryo-EM structures of human G6PT in apo, G6P-bound, and the specific inhibitor chlorogenic acid (CHA)-bound forms, elucidating the structural basis for G6PT transport and inhibition. The G6P pocket comprises subsite A for phosphate and subsite B for glucose. The CHA occupies the G6P site and locks G6PT in a partly-occluded state. Functional assays demonstrate that G6PT activity is enhanced by co-expression of glucose-6-phosphatase (G6PC), but G6PT does not form a complex with G6PC. Together, this study provides a solid foundation for understanding the structure‒function relationships and pathology of G6PT and sheds light on the future development of potential therapeutics targeting G6PT.


  • Organizational Affiliation
    • Beijing National Laboratory for Condensed Matter Physics, Laboratory of Soft Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glucose-6-phosphate exchanger SLC37A4429Homo 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
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
A1EG7 (Subject of Investigation/LOI)
Query on A1EG7

Download Ideal Coordinates CCD File 
B [auth A](1S,3R,4R,5R)-3-[(E)-3-[3,4-bis(oxidanyl)phenyl]prop-2-enoyl]oxy-1,4,5-tris(oxidanyl)cyclohexane-1-carboxylic acid
C16 H18 O9
CWVRJTMFETXNAD-JUHZACGLSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19_4092

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China31971134

Revision History  (Full details and data files)

  • Version 1.0: 2025-11-12
    Type: Initial release