8Y3U

Ebola virus glycoprotein in complex with a broadly neutralizing antibody 2G1

• PDB DOI: https://doi.org/10.2210/pdb8Y3U/pdb
• EM Map EMD-38899: EMDB EMDataResource

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Homo sapiens, Ebola virus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2024-01-29 Released: 2024-08-07 
• Deposition Author(s): Fan, P.F., Yu, C.M., Chen, W.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.98 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Ebola virus glycoprotein in complex with a broadly neutralizing antibody 2G1

Fan, P.F., Yu, C.M., Chen, W.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 12-mer - A3B3C3D3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 12-mer - A6B3C3 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 160.97 kDa 
• Atom Count: 11,273 
• Modelled Residue Count: 1,447 
• Deposited Residue Count: 1,449 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
2G1 VH	A, E, I	124	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
2G1 VL	B, F, J	105	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Virion spike glycoprotein	C, G, K	97	Ebola virus	Mutation(s): 0  Gene Names: GP
UniProt
Find proteins for A0A1C4HDV6 (Ebola virus) Explore A0A1C4HDV6  Go to UniProtKB:  A0A1C4HDV6

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
SGP	D, H, L	157	Ebola virus	Mutation(s): 0  Gene Names: GP
UniProt
Find proteins for A0A1C4HDL5 (Ebola virus) Explore A0A1C4HDL5  Go to UniProtKB:  A0A1C4HDL5

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	M, N, O	5		N/A
Glycosylation Resources
GlyTouCan:  G22768VO GlyCosmos:  G22768VO GlyGen:  G22768VO

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.98 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487:

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-07 
Deposition Author(s): Fan, P.F., Yu, C.M., Chen, W.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	82204260

Revision History  

• Version 1.0: 2024-08-07
  Type: Initial release