8JTT | pdb_00008jtt

hOCT1 in complex with metformin in outward occluded conformation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.87 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8JTT

This is version 1.1 of the entry. See complete history

Literature

Structural insights into human organic cation transporter 1 transport and inhibition.

Zhang, S.Zhu, A.Kong, F.Chen, J.Lan, B.He, G.Gao, K.Cheng, L.Sun, X.Yan, C.Chen, L.Liu, X.

(2024) Cell Discov 10: 30-30

  • DOI: https://doi.org/10.1038/s41421-024-00664-1
  • Primary Citation Related Structures: 
    8JTS, 8JTT, 8JTV, 8JTW, 8JTX, 8JTY, 8JTZ, 8JU0

  • PubMed Abstract: 

    The human organic cation transporter 1 (hOCT1), also known as SLC22A1, is integral to hepatic uptake of structurally diversified endogenous and exogenous organic cations, influencing both metabolism and drug pharmacokinetics. hOCT1 has been implicated in the therapeutic dynamics of many drugs, making interactions with hOCT1 a key consideration in novel drug development and drug-drug interactions. Notably, metformin, the frontline medication for type 2 diabetes, is a prominent hOCT1 substrate. Conversely, hOCT1 can be inhibited by agents such as spironolactone, a steroid analog inhibitor of the aldosterone receptor, necessitating a deep understanding of hOCT1-drug interactions in the development of new pharmacological treatments. Despite extensive study, specifics of hOCT1 transport and inhibition mechanisms remain elusive at the molecular level. Here, we present cryo-electron microscopy structures of the hOCT1-metformin complex in three distinct conformational states - outward open, outward occluded, and inward occluded as well as substrate-free hOCT1 in both partially and fully open states. We also present hOCT1 in complex with spironolactone in both outward and inward facing conformations. These structures provide atomic-level insights into the dynamic metformin transfer process via hOCT1 and the mechanism by which spironolactone inhibits it. Additionally, we identify a 'YER' motif critical for the conformational flexibility of hOCT1 and likely other SLC22 family transporters. Our findings significantly advance the understanding of hOCT1 molecular function and offer a foundational framework for the design of new therapeutic agents targeting this transporter.


  • Organizational Affiliation
    • State Key Laboratory of Membrane Biology, Tsinghua-Peking Center for Life Sciences, School of Pharmaceutical Sciences, Tsinghua University, Beijing, China.

Macromolecule Content 

  • Total Structure Weight: 58.64 kDa 
  • Atom Count: 3,321 
  • Modeled Residue Count: 454 
  • Deposited Residue Count: 530 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Solute carrier family 22 member 1530Homo sapiensMutation(s): 0 
Gene Names: SLC22A1OCT1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for O15245 (Homo sapiens)
Explore O15245 
Go to UniProtKB:  O15245
PHAROS:  O15245
GTEx:  ENSG00000175003 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO15245
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
MF8
(Subject of Investigation/LOI)

Query on MF8



Download:Ideal Coordinates CCD File
B [auth A]Metformin
C4 H11 N5
XZWYZXLIPXDOLR-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.87 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32122041

Revision History  (Full details and data files)

  • Version 1.0: 2024-03-27
    Type: Initial release
  • Version 1.1: 2025-07-16
    Changes: Data collection, Structure summary