7A5R

Complex of SARS-CoV-2 spike and CR3022 Fab (Non-Uniform Refinement)

• PDB DOI: https://doi.org/10.2210/pdb7A5R/pdb
• EM Map EMD-11648: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Homo sapiens, Severe acute respiratory syndrome coronavirus 2
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2020-08-21 Released: 2020-09-16 
• Deposition Author(s): Wrobel, A.G., Benton, D.J., Rosenthal, P.B., Gamblin, S.J.
• Funding Organization(s): The Francis Crick Institute

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental

Literature

Antibody-mediated disruption of the SARS-CoV-2 spike glycoprotein.

Wrobel, A.G., Benton, D.J., Hussain, S., Harvey, R., Martin, S.R., Roustan, C., Rosenthal, P.B., Skehel, J.J., Gamblin, S.J.

(2020) Nat Commun 11: 5337-5337

• PubMed: 33087721 
• DOI: https://doi.org/10.1038/s41467-020-19146-5
• Primary Citation of Related Structures:  
  7A5R, 7A5S


• PubMed Abstract: 
  

  The CR3022 antibody, selected from a group of SARS-CoV monoclonal antibodies for its ability to cross-react with SARS-CoV-2, has been examined for its ability to bind to the ectodomain of the SARS-CoV-2 spike glycoprotein. Using cryo-electron microscopy we show that antibody binding requires rearrangements in the S1 domain that result in dissociation of the spike.

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Organizational Affiliation: 

Structural Biology of Disease Processes Laboratory, Francis Crick Institute, NW1 1AT, London, UK. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A2B2C2 Pseudo Symmetry: Cyclic - C2  (Explore in 3D)
Pseudo Stoichiometry: Hetero 6-mer - A4B2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 393.23 kDa 
• Atom Count: 10,608 
• Modelled Residue Count: 1,358 
• Deposited Residue Count: 3,564 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CR3022 Fab Heavy Chain	A [auth H], F [auth I]	256	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CR3022 Fab Light Chain	B [auth L], E [auth M]	240	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein	C [auth A], D [auth B]	1,286	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 2  Gene Names: S, 2
UniProt
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2  Go to UniProtKB:  P0DTC2
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: P0DTC2-1

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G [auth C], H [auth D]	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.70 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2020-09-16 
Deposition Author(s): Wrobel, A.G., Benton, D.J., Rosenthal, P.B., Gamblin, S.J.

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Funding Organization	Location	Grant Number
The Francis Crick Institute	United Kingdom	FC001078
The Francis Crick Institute	United Kingdom	FC001143
The Francis Crick Institute	United Kingdom	FC001030

Revision History  

• Version 1.0: 2020-09-16
  Type: Initial release
  
• Version 1.1: 2020-11-04
  Changes: Database references
• Version 1.2: 2024-11-20
  Changes: Data collection, Database references, Refinement description, Structure summary