8UD2

SARS-CoV-2 Nsp15, apo-form

• PDB DOI: https://doi.org/10.2210/pdb8UD2/pdb
• EM Map EMD-42144: EMDB EMDataResource

• Classification: VIRAL PROTEIN/RNA
• Organism(s): Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2023-09-28 Released: 2024-04-24 
• Deposition Author(s): Ito, F., Yang, H., Zhou, Z.H., Chen, X.S.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.33 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis for polyuridine tract recognition by SARS-CoV-2 Nsp15.

Ito, F., Yang, H., Zhou, Z.H., Chen, X.S.

(2024) Protein Cell 

• PubMed: 38613382 
• DOI: https://doi.org/10.1093/procel/pwae009
• Primary Citation of Related Structures:  
  8UD2, 8UD3, 8UD4, 8UD5

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Organizational Affiliation: 

Molecular and Computational Biology, Department of Biological Sciences, University of Southern California, Los Angeles, CA 90089, USA.

Biological Assembly 1  

Global Symmetry: Dihedral - D3  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 241.25 kDa 
• Atom Count: 16,530 
• Modelled Residue Count: 2,076 
• Deposited Residue Count: 2,154 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 15	A, B, C, D, E, F	359	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 1  Gene Names: rep, 1a-1b EC: 4.6.1
UniProt
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1  Go to UniProtKB:  P0DTD1

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.33 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-04-24 
Deposition Author(s): Ito, F., Yang, H., Zhou, Z.H., Chen, X.S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	R01AI150524

Revision History  

• Version 1.0: 2024-04-24
  Type: Initial release