8YVY

Semliki Forest virus virion

• PDB DOI: https://doi.org/10.2210/pdb8YVY/pdb
• EM Map EMD-39616: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): Semliki Forest virus 4
• Mutation(s): No 


• Deposited: 2024-03-29 Released: 2024-12-11 
• Deposition Author(s): Zheng, T., Wang, J., Yang, D.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.02 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Semliki Forest virus viron

Zheng, T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 16-mer - A4B4C4D4 

Local Symmetry: Cyclic - C3  (Explore in 3D)
Local Stoichiometry: Homo 3-mer - B3 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 477.43 kDa 
• Atom Count: 33,424 
• Modelled Residue Count: 4,276 
• Deposited Residue Count: 4,276 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein E1	A, E [auth F], F [auth G], G [auth H]	438	Semliki Forest virus 4	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315  Go to UniProtKB:  P03315
Glycosylation
Glycosylation Sites: 1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein E2	B, H [auth I], I [auth J], J [auth K]	418	Semliki Forest virus 4	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315  Go to UniProtKB:  P03315
Glycosylation
Glycosylation Sites: 2

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein E3	C, K [auth L], L [auth M], M [auth N]	52	Semliki Forest virus 4	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315  Go to UniProtKB:  P03315

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
capsid protein	D, N [auth O], O [auth P], P [auth Q]	161	Semliki Forest virus 4	Mutation(s): 0
UniProt
Find proteins for P03315 (Semliki forest virus) Explore P03315  Go to UniProtKB:  P03315

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	AA [auth a], BA [auth b], Q [auth E], R, S, T, U, V, W, X, Y, Z	3		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE GlyCosmos:  G15407YE GlyGen:  G15407YE

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.02 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-12-11 
Deposition Author(s): Zheng, T., Wang, J., Yang, D.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-12-11
  Type: Initial release