9DIJ image
Deposition Date 2024-09-05
Release Date 2025-05-21
Last Version Date 2025-05-28
Entry Detail
PDB ID:
9DIJ
Title:
4 Angstrom structure of the human TRPV3 pentamer
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
4.07 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Transient receptor potential cation channel subfamily V member 3
Gene (Uniprot):TRPV3
Chain IDs:A, B, C, D, E
Chain Length:806
Number of Molecules:5
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structural dynamics and permeability of the TRPV3 pentamer.
Nat Commun 16 4520 4520 (2025)
PMID: 40374654 DOI: 10.1038/s41467-025-59798-9

Abstact

TRPV3 belongs to the large superfamily of tetrameric transient receptor potential (TRP) ion channels. Recently, using high-speed atomic force microscopy (HS-AFM), we discovered a rare and transient pentameric state for TRPV3 that is in equilibrium with the tetrameric state, and, using cryo-EM, we solved a low-resolution structure of the TRPV3 pentamer, in which, however, many residues were unresolved. Here, we present a higher resolution and more complete structure of the pentamer, revealing a domain-swapped architecture, a collapsed vanilloid binding site, and a large pore. Molecular dynamics simulations and potential of mean force calculations of the pentamer establish high protein dynamics and permeability to large cations. Subunit interface analysis, together with thermal denaturation experiments, led us to propose a molecular mechanism of the tetramer-to-pentamer transition, backed experimentally by HS-AFM observations. Collectively, our data demonstrate that the TRPV3 pentamer is in a hyper-activated state with unique, highly permissive permeation properties.

Legend

Protein

Chemical

Disease

Primary Citation of related structures