8H8D | pdb_00008h8d

Structure of Xenopus tropicalis acid-sensitive outwardly rectifying channel ASOR trimer bound with tRNA (intermediate state)

• PDB DOI: https://doi.org/10.2210/pdb8H8D/pdb
• EM Map EMD-34543: EMDB EMDataResource

• Classification: MEMBRANE PROTEIN
• Organism(s): Xenopus tropicalis
• Expression System: Spodoptera frugiperda
• Mutation(s): No 
• Membrane Protein: Yes  PDBTM


• Deposited: 2022-10-22 Released: 2024-05-01 
• Deposition Author(s): Chi, P., Wang, X., Li, J., Li, K., Zhang, Y., Geng, J., Wu, J., Deng, D.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.26 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Molecular insights into the inhibition of proton-activated chloride channel by transfer RNA.

Chi, P., Wang, X., Li, J., Yang, H., Li, K., Zhang, Y., Lin, S., Yu, L., Liu, S., Chen, L., Ren, R., Wu, J., Huang, Z., Geng, J., Deng, D.

(2024) Cell Res 34: 743-745

• PubMed: 38942816 
• DOI: https://doi.org/10.1038/s41422-024-00993-6
• Primary Citation of Related Structures:  
  8H8D, 8H8E, 8H8F

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Organizational Affiliation: 
• Department of Obstetrics, Key Laboratory of Birth Defects and Related Disease of Women and Children of MOE, State Key Laboratory of Biotherapy, West China Second Hospital, Sichuan University, Chengdu, Sichuan, China.
State Key Laboratory of Natural and Biomimetic Drugs, Department of Molecular and Cellular Pharmacology, School of Pharmaceutical Sciences, Peking University, Beijing, China.
Department of Laboratory Medicine, West China Hospital, Sichuan University and Collaborative Innovation Center for Biotherapy, Chengdu, Sichuan, China.
Key Laboratory of Structural Biology of Zhejiang Province, School of Life Sciences, Westlake University, Westlake Laboratory of Life Sciences and Biomedicine, Institute of Biology, Westlake Institute for Advanced Study, Hangzhou, Zhejiang, China.
Kobilka Institute of Innovative Drug Discovery, School of Life and Health Sciences, the Chinese University of Hong Kong, Shenzhen, Guangdong, China.
Shanghai Key Laboratory of Metabolic Remodeling and Health, Institute of Metabolism and Integrative Biology, Fudan University, Shanghai, China.
Key Laboratory of Structural Biology of Zhejiang Province, School of Life Sciences, Westlake University, Westlake Laboratory of Life Sciences and Biomedicine, Institute of Biology, Westlake Institute for Advanced Study, Hangzhou, Zhejiang, China. [e-mail].
State Key Laboratory of Natural and Biomimetic Drugs, Department of Molecular and Cellular Pharmacology, School of Pharmaceutical Sciences, Peking University, Beijing, China. [e-mail].
Department of Laboratory Medicine, West China Hospital, Sichuan University and Collaborative Innovation Center for Biotherapy, Chengdu, Sichuan, China. [e-mail].
Department of Obstetrics, Key Laboratory of Birth Defects and Related Disease of Women and Children of MOE, State Key Laboratory of Biotherapy, West China Second Hospital, Sichuan University, Chengdu, Sichuan, China. [e-mail].
Development and Related Diseases of Women and Children Key Laboratory of Sichuan Province, Sichuan University, Chengdu, Sichuan, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 123.1 kDa 
• Atom Count: 7,054 
• Modeled Residue Count: 856 
• Deposited Residue Count: 1,056 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proton-activated chloride channel	A, B, C	352	Xenopus tropicalis	Mutation(s): 0  Gene Names: pacc1, tmem206 Membrane Entity: Yes
UniProt
Find proteins for Q0V9Z3 (Xenopus tropicalis) Explore Q0V9Z3  Go to UniProtKB:  Q0V9Z3

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.26 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-05-01 
Deposition Author(s): Chi, P., Wang, X., Li, J., Li, K., Zhang, Y., Geng, J., Wu, J., Deng, D.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31971132

Revision History  

• Version 1.0: 2024-05-01
  Type: Initial release
  
• Version 1.1: 2024-09-04
  Changes: Data collection, Database references
• Version 1.2: 2024-10-16
  Changes: Data collection, Database references, Structure summary
• Version 1.3: 2024-11-06
  Changes: Data collection
• Version 1.4: 2025-07-02
  Changes: Data collection