8J1B | pdb_00008j1b

GSK101 and Ruthenium Red bound state of mTRPV4

• PDB DOI: https://doi.org/10.2210/pdb8J1B/pdb
• EM Map EMD-35918: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 
• Membrane Protein: Yes  PDBTMMemProtMDmpstruc


• Deposited: 2023-04-12 Released: 2023-08-09 
• Deposition Author(s): Zhen, W.X., Yang, F.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.72 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis of ligand activation and inhibition in a mammalian TRPV4 ion channel.

Zhen, W., Zhao, Z., Chang, S., Chen, X., Wan, Y., Yang, F.

(2023) Cell Discov 9: 70-70

• PubMed: 37429860 
• DOI: https://doi.org/10.1038/s41421-023-00579-3
• Primary Citation of Related Structures:  
  8J1B, 8J1D, 8J1F, 8J1H, 8JKM

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Organizational Affiliation: 
• Department of Biophysics and Kidney Disease Center of the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, China.
Liangzhu Laboratory, Zhejiang University Medical Center, Hangzhou, Zhejiang, China.
Alibaba-Zhejiang University Joint Research Center of Future Digital Healthcare, Hangzhou, Zhejiang, China.
Department of Pathology of Sir Run Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, China.
Center of Cryo Electron Microscopy, Zhejiang University, Hangzhou, Zhejiang, China.
Department of Biophysics and Kidney Disease Center of the First Affiliated Hospital, Zhejiang University School of Medicine, Hangzhou, Zhejiang, China. [e-mail].
Liangzhu Laboratory, Zhejiang University Medical Center, Hangzhou, Zhejiang, China. [e-mail].
Alibaba-Zhejiang University Joint Research Center of Future Digital Healthcare, Hangzhou, Zhejiang, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C4  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 321.63 kDa 
• Atom Count: 19,427 
• Modeled Residue Count: 2,388 
• Deposited Residue Count: 2,800 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transient receptor potential cation channel subfamily V member 4	A, B, C, D	700	Mus musculus	Mutation(s): 0  Gene Names: Trpv4, Trp12, Vrl2, Vroac Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for Q9EPK8 (Mus musculus) Explore Q9EPK8  Go to UniProtKB:  Q9EPK8
IMPC:  MGI:1926945

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
XQ3 (Subject of Investigation/LOI)	E [auth A], G [auth B], H [auth C], I [auth D]	N-[(2S)-1-{4-[N-(2,4-dichlorobenzene-1-sulfonyl)-L-seryl]piperazin-1-yl}-4-methyl-1-oxopentan-2-yl]-1-benzothiophene-2-carboxamide C28 H32 Cl2 N4 O6 S2 IVYQPSHHYIAUFO-VXKWHMMOSA-N
R2R (Subject of Investigation/LOI)	F [auth A]	ruthenium(6+) azanide pentaamino(oxido)ruthenium (1/4/2) H28 N14 O2 Ru3 FOOPNNMQSUSGAT-UHFFFAOYSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
XQ3	BindingDB:  8J1B	IC50: 122 (nM) from 1 assay(s)
		EC50: min: 3.5, max: 49 (nM) from 2 assay(s)

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.72 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-09 
Deposition Author(s): Zhen, W.X., Yang, F.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	32122040

Revision History  

• Version 1.0: 2023-08-09
  Type: Initial release
  
• Version 1.1: 2024-05-29
  Changes: Data collection