8YFT image
Entry Detail
PDB ID:
8YFT
EMDB ID:
EMD-39229
Keywords:
VIRAL PROTEIN/HYDROLASE
Title:
Cryo-EM structure of SARS-CoV-2 alpha variant spike protein in complex with raccoon dog ACE2 (local refinement)
Biological Source:
Source Organism:
Nyctereutes procyonoides, Severe acute respiratory syndrome coronavirus 2
Host Organism:
Homo sapiens
PDB Version:
Deposition Date:
2024-02-25
Release Date:
2024-10-23
Method Details:
Experimental Method:
ELECTRON MICROSCOPY
Resolution:
3.16 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
8YFT validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Description:Angiotensin-converting enzyme
Chain IDs:A
Chain Length:605
Number of Molecules:1
Biological Source:Nyctereutes procyonoides
UniProt ID:B4XEP4 Pfam ID:PF01401
Protein Blast
Polymer Type:polypeptide(L)
Description:Spike protein S1
Chain IDs:B
Chain Length:223
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus 2
UniProt ID:P0DTC2 Pfam ID:PF09408
Ligand Molecules
NAG
ZN
Primary Citation
Receptor binding and structural basis of raccoon dog ACE2 binding to SARS-CoV-2 prototype and its variants.
Plos Pathog. 20 e1012713 e1012713 (2024)
PMID: 39637248 DOI: 10.1371/journal.ppat.1012713

Abstact

Raccoon dog was proposed as a potential host of SARS-CoV-2, but no evidence support such a notion. In our study, we investigated the binding affinities of raccoon dog ACE2 (rdACE2) to the spike (S) protein receptor binding domain (RBD) of SARS-CoV-2 prototype (PT) and its variants. It revealed that the binding affinities of RBD from SARS-CoV-2 variants were generally lower than that of the PT RBD. Through structural and functional analyses, we found amino acids H34 and M82 play pivotal roles in maintaining the binding affinity of ACE2 to different SARS-CoV-2 sub-variants. These results suggest that raccoon dogs exhibit lower susceptibility to SARS-CoV-2 compared to those animal species with a high prevalence of SARS-CoV-2 transmission.

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Primary Citation of related structures
8YFT