9OR5 | pdb_00009or5

Cryo-EM structure of rat TRPM1 in the apo state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.30 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

Cryo-EM structure of TRPM1 reveals a non-canonical architecture with an inverted transmembrane domain.

Fabrizio, M.Brewer, M.Bogdanovic, N.Zhao, C.

(2026) Nat Commun 

  • DOI: https://doi.org/10.1038/s41467-026-70722-7
  • Primary Citation Related Structures: 
    9OR5

  • PubMed Abstract: 

    Transient receptor potential melastatin 1 (TRPM1) is a membrane protein essential for vision in dim light, and mutations in TRPM1 cause complete congenital stationary night blindness. Although TRPM1 shares sequence similarity to other TRPM ion channels such as TRPM3, whether it independently functions as an ion channel remains controversial. This controversy is largely caused by TRPM1's challenging biochemical behaviors that prevent detailed molecular characterization. In this work, we isolate TRPM1 and determine its structures using cryogenic electron microscopy (cryo-EM). The structures reveal a canonical tetrameric fold in the intracellular domain, consistent with other TRPM family members that are ion channels. Surprisingly, in the transmembrane domain, despite the presence of the conserved voltage sensor-like domain (VSLD) and pore domain (PD) in a domain-swapped fashion, the VSLD and PD are arranged with an opposite handedness compared to other related channels. This inverted transmembrane domain allows the formation of a large pore-like structure that supports the role of TRPM1 as an ion channel. This non-canonical architecture of TRPM1 may also confer unique permeation and pharmacological properties.


  • Organizational Affiliation
    • Department of Biochemistry and Molecular Biology, College of Medicine, University of Florida, Gainesville, FL, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform 2 of Transient receptor potential cation channel subfamily M member 1
A, B, C, D
1,373Rattus norvegicusMutation(s): 0 
Gene Names: Trpm1
UniProt
Find proteins for Q2WEA5 (Rattus norvegicus)
Go to UniProtKB:  Q2WEA5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ2WEA5-2
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United States1R24GM154186
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR24GM145964
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR24GM154185

Revision History  (Full details and data files)

  • Version 1.0: 2026-04-01
    Type: Initial release