7Y7K

SARS-CoV-2 RBD in complex with 1F Fab

• PDB DOI: https://doi.org/10.2210/pdb7Y7K/pdb
• EM Map EMD-33668: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Severe acute respiratory syndrome coronavirus 2, Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2022-06-22 Released: 2023-02-22 
• Deposition Author(s): Zhao, S., Liu, F., Yang, X., Zhong, G.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

A core epitope targeting antibody of SARS-CoV-2.

Zhao, S., Liu, F., Qiu, S., Lan, Q., Wu, Y., Xu, W., Ke, J., Yang, J., Liu, X., Wang, K., Guo, H., Xia, S., Zhang, F., Wang, J., Hu, X., Lu, L., Jiang, S., Zhao, S., Liu, L., Xie, Y., Yang, X., Wang, H., Zhong, G.

(2023) Protein Cell 14: 74-78

• PubMed: 36726762 
• DOI: https://doi.org/10.1093/procel/pwac042
• Primary Citation of Related Structures:  
  7Y7J, 7Y7K

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Organizational Affiliation: 

iHuman Institute, ShanghaiTech University, Shanghai 201210, China.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A1B1C1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 3-mer - A2B1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 46.45 kDa 
• Atom Count: 2,942 
• Modelled Residue Count: 422 
• Deposited Residue Count: 422 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike protein S1	A	179	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0  Gene Names: S, 2
UniProt
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2  Go to UniProtKB:  P0DTC2

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
1F VH	B	132	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
1F VL	C	111	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-02-22 
Deposition Author(s): Zhao, S., Liu, F., Yang, X., Zhong, G.

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

Revision History  

• Version 1.0: 2023-02-22
  Type: Initial release
  
• Version 1.1: 2024-11-13
  Changes: Data collection, Structure summary