Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 3-mer - A2B1 Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Local Symmetry: Cyclic - C2  (3D View)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 91.62 kDa 
• Atom Count: 5092 
• Modelled Residue Count: 639 
• Deposited Residue Count: 804 
• Unique protein chains: 2

7M4R

Structural basis for SARS-CoV-2 envelope protein in recognition of human cell junction protein PALS1

• PDB DOI: 10.2210/pdb7M4R/pdb
• EM Map EMD-23665: EMDB EMDataResource

• Classification: CELL ADHESION/VIRAL PROTEIN
• Organism(s): Homo sapiens, Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-03-22 Released: 2021-03-31 
• Deposition Author(s): Liu, Q., Chai, J.

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.65 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for SARS-CoV-2 envelope protein recognition of human cell junction protein PALS1.

Chai, J., Cai, Y., Pang, C., Wang, L., McSweeney, S., Shanklin, J., Liu, Q.

(2021) Nat Commun 12: 3433-3433

• PubMed: 34103506 
• DOI: 10.1038/s41467-021-23533-x
• Primary Citation of Related Structures:  
  7M4R


• PubMed Abstract: 
  

The COVID-19 pandemic, caused by the SARS-CoV-2 virus, has created global health and economic emergencies. SARS-CoV-2 viruses promote their own spread and virulence by hijacking human proteins, which occurs through viral protein recognition of human targets. To understand the structural basis for SARS-CoV-2 viral-host protein recognition, here we use cryo-electron microscopy (cryo-EM) to determine a complex structure of the human cell junction protein PALS1 and SARS-CoV-2 viral envelope (E) protein. Our reported structure shows that the E protein C-terminal DLLV motif recognizes a pocket formed exclusively by hydrophobic residues from the PDZ and SH3 domains of PALS1. Our structural analysis provides an explanation for the observation that the viral E protein recruits PALS1 from lung epithelial cell junctions. In addition, our structure provides novel targets for peptide- and small-molecule inhibitors that could block the PALS1-E interactions to reduce E-mediated virulence.

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Organizational Affiliation: 

NSLS-II, Brookhaven National Laboratory, Upton, NY, USA. [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MAGUK p55 subfamily member 5	A, B	393	Homo sapiens	Mutation(s): 0  Gene Names: MPP5, PALS1
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N3R9 (Homo sapiens) Explore Q8N3R9  Go to UniProtKB:  Q8N3R9
PHAROS:  Q8N3R9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope small membrane protein	C	18	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0  Gene Names: E, 4
UniProt
Find proteins for P0DTC4 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC4  Go to UniProtKB:  P0DTC4

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.65 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2021-03-22 
• Released Date: 2021-03-31 
Deposition Author(s): Liu, Q., Chai, J.

Revision History  

• Version 1.0: 2021-03-31
  Type: Initial release
  
• Version 1.1: 2021-07-28
  Changes: Database references