9DIJ

4 Angstrom structure of the human TRPV3 pentamer

Summary for 9DIJ

• Entry DOI: 10.2210/pdb9dij/pdb
• Related: 8GKG
• EMDB information: 46907
• Descriptor: Transient receptor potential cation channel subfamily V member 3 (1 entity in total)
• Functional Keywords: ion channel, transient receptor potential channel, alternative oligomeric state, pore dilation, membrane protein
• Biological source: Homo sapiens (human)
• Total number of polymer chains: 5
• Total formula weight: 463345.00

Authors

Lansky, S.,Clarke, O.B.,Scheuring, S. (deposition date: 2024-09-05, release date: 2025-05-21, Last modification date: 2025-05-28)

Primary citation

Lansky, S.,Wang, Z.,Clarke, O.B.,Chipot, C.,Scheuring, S.
Structural dynamics and permeability of the TRPV3 pentamer.
Nat Commun, 16:4520-4520, 2025

PubMed Abstract: 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.

PubMed: 40374654
DOI: 10.1038/s41467-025-59798-9

Experimental method

ELECTRON MICROSCOPY (4.07 Å)