7MSX

SARS-CoV-2 Nsp2

• PDB DOI: https://doi.org/10.2210/pdb7MSX/pdb
• EM Map EMD-23971: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Severe acute respiratory syndrome coronavirus 2
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-05-12 Released: 2021-05-26 
• Deposition Author(s): QCRG Structural Biology Consortium
• Funding Organization(s): DARPA, FastGrants, Laboratory for Genomics Research, Quantitative Biosciences Institute

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.15 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

CryoEM and AI reveal a structure of SARS-CoV-2 Nsp2, a multifunctional protein involved in key host processes.

QCRG Structural Biology Consortium

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: microscopy

Macromolecule Content

• Total Structure Weight: 70.79 kDa 
• Atom Count: 3,706 
• Modelled Residue Count: 473 
• Deposited Residue Count: 638 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Non-structural protein 2	A	638	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0  Gene Names: rep, 1a-1b
UniProt
Find proteins for P0DTD1 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTD1  Go to UniProtKB:  P0DTD1

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	B [auth A], C [auth A], D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.15 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	Rosetta	2020.08.61146
MODEL REFINEMENT	ISOLDE	1.0
RECONSTRUCTION	RELION	3.0.8

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-05-26 
Deposition Author(s): QCRG Structural Biology Consortium

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Funding Organization	Location	Grant Number
DARPA	United States	HR0011-19-2-0020
FastGrants	United States	COVID19 grant
Laboratory for Genomics Research	United States	Excellence in Research Award COVID19
Quantitative Biosciences Institute	United States	--

Revision History  

• Version 1.0: 2021-05-26
  Type: Initial release
  
• Version 1.1: 2024-05-29
  Changes: Data collection, Database references