8YOY | pdb_00008yoy

Structure of HKU1A RBD with TMPRSS2

• PDB DOI: https://doi.org/10.2210/pdb8YOY/pdb
• EM Map EMD-39460: EMDB EMDataResource

• Classification: VIRAL PROTEIN/HYDROLASE
• Organism(s): Candidatus Accumulibacter adiacens, Homo sapiens
• Expression System: Baculovirus expression vector pFastBac1-HM
• Mutation(s): No 


• Deposited: 2024-03-14 Released: 2024-08-28 
• Deposition Author(s): Gao, X., Cui, S., Ding, W., Shang, K., Zhu, H., Zhu, K.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.21 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for the interaction between human coronavirus HKU1 spike receptor binding domain and its receptor TMPRSS2.

Gao, X., Zhu, K., Wang, L., Shang, K., Hua, L., Qin, B., Zhu, H., Ding, W., Cui, S.

(2024) Cell Discov 10: 84-84

• PubMed: 39112468 
• DOI: https://doi.org/10.1038/s41421-024-00717-5
• Primary Citation of Related Structures:  
  8YOY, 8YQQ

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Organizational Affiliation: 
• NHC Key Laboratory of Systems Biology of Pathogens, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China. [e-mail].
Key Laboratory of Pathogen Infection Prevention and Control (Ministry of Education), National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China. [e-mail].
State Key Laboratory of Respiratory Health and Multimorbidity, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China. [e-mail].
NHC Key Laboratory of Systems Biology of Pathogens, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China.
Key Laboratory of Pathogen Infection Prevention and Control (Ministry of Education), National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
State Key Laboratory of Respiratory Health and Multimorbidity, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China.
Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing, China.
Songshan Lake Materials Laboratory, Dongguan, Guangdong, China.
Medical School, Yan'an University, Yan'an, Shaanxi, China.
Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing, China. [e-mail].
Songshan Lake Materials Laboratory, Dongguan, Guangdong, China. [e-mail].
University of Chinese Academy of Sciences, Beijing, China. [e-mail].
Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing, China. [e-mail].
Songshan Lake Materials Laboratory, Dongguan, Guangdong, China. [e-mail].
University of Chinese Academy of Sciences, Beijing, China. [e-mail].
NHC Key Laboratory of Systems Biology of Pathogens, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China. [e-mail].
Key Laboratory of Pathogen Infection Prevention and Control (Ministry of Education), National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China. [e-mail].
State Key Laboratory of Respiratory Health and Multimorbidity, National Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China. [e-mail].

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 83.81 kDa 
• Atom Count: 5,081 
• Modeled Residue Count: 653 
• Deposited Residue Count: 755 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike protein S1	A	371	Candidatus Accumulibacter adiacens	Mutation(s): 0  Gene Names: S, 3
UniProt
Find proteins for Q5MQD0 (Human coronavirus HKU1 (isolate N1)) Explore Q5MQD0  Go to UniProtKB:  Q5MQD0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Transmembrane protease serine 2	B	384	Homo sapiens	Mutation(s): 0  Gene Names: TMPRSS2, PRSS10 EC: 3.4.21.122
UniProt & NIH Common Fund Data Resources
Find proteins for O15393 (Homo sapiens) Explore O15393  Go to UniProtKB:  O15393
PHAROS:  O15393 GTEx:  ENSG00000184012

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.21 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: 2024-08-28 
Deposition Author(s): Gao, X., Cui, S., Ding, W., Shang, K., Zhu, H., Zhu, K.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-08-28
  Type: Initial release
  
• Version 1.1: 2024-10-16
  Changes: Data collection, Structure summary
• Version 1.2: 2025-07-16
  Changes: Data collection