7S82 | pdb_00007s82

Cryo-EM structure of SARS-CoV-2 Main protease C145S in complex with N-terminal peptide

• PDB DOI: https://doi.org/10.2210/pdb7S82/pdb
• EM Map EMD-24889: EMDB EMDataResource

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


• Deposited: 2021-09-17 Released: 2022-03-30 
• Deposition Author(s): Noske, G.D., Song, Y., Fernandes, R.S., Oliva, G., Godoy, A.S.
• Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 8EY2

Literature

Cryo-EM structure of SARS-CoV-2 Main protease C145S in complex with N-terminal peptide

Noske, G.D., Song, Y., Fernandes, R.S., Oliva, G., Godoy, A.S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 138.27 kDa 
• Atom Count: 4,904 
• Modeled Residue Count: 634 
• Deposited Residue Count: 1,256 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
3C-like proteinase	A, B [auth C], C [auth B], D	314	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 1  Gene Names: rep, 1a-1b EC: 3.4.22.69
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: 3.50 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-03-30 
Deposition Author(s): Noske, G.D., Song, Y., Fernandes, R.S., Oliva, G., Godoy, A.S.

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Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2013/07600-3

Revision History  

• Version 1.0: 2022-03-30
  Type: Initial release
  
• Version 1.1: 2024-06-05
  Changes: Data collection, Refinement description