9Z1X | pdb_00009z1x

Cryo-EM structure of human TRPM4 channel in the warm conformation in complex with calcium and TPPO at 37 degrees Celsius (monomeric TMD-focused map with best-resolved TPPO density)

  • Classification: MEMBRANE PROTEIN
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 

  • Deposited: 2025-11-04 Released: 2026-06-17 
  • Deposition Author(s): Jinhong, H., Wei, L., Juan, D.
  • Funding Organization(s): National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS), Other private, American Heart Association

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9Z1X

This is version 1.1 of the entry. See complete history

Literature

Temperature and intrinsic Ca 2+ reshape TRPM4 pharmacology.

Hu, J.Ievleva, S.Park, S.J.Lee, J.Cheng, J.O'Dea, G.Sheng, J.Du, J.Lu, W.

(2026) Nat Struct Mol Biol 

  • DOI: https://doi.org/10.1038/s41594-026-01818-3
  • Primary Citation Related Structures: 
    9Z1W, 9Z1X, 9Z1Y, 9Z1Z, 9Z20, 9Z21, 9Z22, 9Z23, 9Z24, 9Z25, 9Z26, 9Z27

  • PubMed Abstract: 

    Proteins operate in dynamic environments where ions, lipids and temperature collectively define their properties, yet most studies rely on simplified conditions that overlook these intrinsic variables. Here we show two such factors-temperature and Ca 2+ -remodel the function and pharmacology of TRPM4, an ion channel implicated in cardiac conduction, immune regulation, cancer and intestinal-fluid homeostasis. At physiological temperature and Ca 2+ , TPPO-previously considered a selective TRPM5 inhibitor inactive toward TRPM4-potently activates TRPM4, revealing strong synergy among temperature, Ca 2+ and ligand binding. By contrast, Necrocide-1, a necroptotic activator targeting the same binding pocket, defies this logic: it opens TRPM4 without Ca 2+ but is antagonized by Ca 2+ . Meanwhile, the inhibitors NBA and CBA engage a nearby pocket, locking the channel in a non-conductive pre-open state. Our findings highlight that even rigid binding pockets can exhibit temperature-dependent ligand recognition, revealing hidden pharmacology and informing selective, environment-aware therapeutic strategies.


  • Organizational Affiliation
    • Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA.

Macromolecule Content 

  • Total Structure Weight: 134.77 kDa 
  • Atom Count: 2,912 
  • Modeled Residue Count: 364 
  • Deposited Residue Count: 1,214 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Transient receptor potential cation channel subfamily M member 41,214Homo sapiensMutation(s): 0 
Gene Names: TRPM4LTRPC4
UniProt & NIH Common Fund Data Resources
Find proteins for Q8TD43 (Homo sapiens)
Explore Q8TD43 
Go to UniProtKB:  Q8TD43
PHAROS:  Q8TD43
GTEx:  ENSG00000130529 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8TD43
Sequence Annotations
Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION5.0

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)United StatesR01HL153219
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS129804
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS111031
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)United StatesR01NS112363
Other privateUnited StatesMcKnight Scholar Award
Other privateUnited StatesKlingenstein-Simon Scholar Award
Other privateUnited StatesSloan Research Fellowship
Other privateUnited StatesPew Scholar in the Biomedical Sciences
American Heart AssociationUnited States24POST1196982

Revision History  (Full details and data files)

  • Version 1.0: 2026-06-17
    Type: Initial release
  • Version 1.1: 2026-06-24
    Changes: Data collection, Database references