8FFM

Wildtype rat TRPV2 in nanodiscs bound to RR and 2-APB


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular details of ruthenium red pore block in TRPV channels.

Pumroy, R.A.De Jesus-Perez, J.J.Protopopova, A.D.Rocereta, J.A.Fluck, E.C.Fricke, T.Lee, B.H.Rohacs, T.Leffler, A.Moiseenkova-Bell, V.

(2024) EMBO Rep 25: 506-523

  • DOI: https://doi.org/10.1038/s44319-023-00050-0
  • Primary Citation of Related Structures:  
    8FFL, 8FFM, 8FFN, 8FFQ

  • PubMed Abstract: 

    Transient receptor potential vanilloid (TRPV) channels play a critical role in calcium homeostasis, pain sensation, immunological response, and cancer progression. TRPV channels are blocked by ruthenium red (RR), a universal pore blocker for a wide array of cation channels. Here we use cryo-electron microscopy to reveal the molecular details of RR block in TRPV2 and TRPV5, members of the two TRPV subfamilies. In TRPV2 activated by 2-aminoethoxydiphenyl borate, RR is tightly coordinated in the open selectivity filter, blocking ion flow and preventing channel inactivation. In TRPV5 activated by phosphatidylinositol 4,5-bisphosphate, RR blocks the selectivity filter and closes the lower gate through an interaction with polar residues in the pore vestibule. Together, our results provide a detailed understanding of TRPV subfamily pore block, the dynamic nature of the selectivity filter and allosteric communication between the selectivity filter and lower gate.


  • Organizational Affiliation

    Institute for Neurophysiology, Hannover Medical School, 30625, Hannover, Germany.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transient receptor potential cation channel subfamily V member 2
A, B, C, D
761Rattus norvegicusMutation(s): 0 
Gene Names: Trpv2Sac2bVrl1
UniProt
Find proteins for Q9WUD2 (Rattus norvegicus)
Explore Q9WUD2 
Go to UniProtKB:  Q9WUD2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9WUD2
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
R2R (Subject of Investigation/LOI)
Query on R2R

Download Ideal Coordinates CCD File 
G [auth A]ruthenium(6+) azanide pentaamino(oxido)ruthenium (1/4/2)
H28 N14 O2 Ru3
FOOPNNMQSUSGAT-UHFFFAOYSA-N
PEX
Query on PEX

Download Ideal Coordinates CCD File 
E [auth A],
H [auth B],
J [auth C],
L [auth D]
1,2-DIDECANOYL-SN-GLYCERO-3-PHOSPHOETHANOLAMINE
C25 H49 N O8 P
KKOSJVWUOHEQKA-HSZRJFAPSA-M
FZ4
Query on FZ4

Download Ideal Coordinates CCD File 
F [auth A],
I [auth B],
K [auth C],
M [auth D]
2-aminoethyl diphenylborinate
C14 H16 B N O
BLZVCIGGICSWIG-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTISOLDE

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM144120

Revision History  (Full details and data files)

  • Version 1.0: 2024-02-07
    Type: Initial release
  • Version 1.1: 2024-02-21
    Changes: Database references