9W0G | pdb_00009w0g

CryoEM structure of EV-D68 strain Fermon in complex with MFSD6-R196-L226

• PDB DOI: https://doi.org/10.2210/pdb9W0G/pdb
• EM Map EMD-65504: EMDB EMDataResource

• Classification: VIRAL PROTEIN
• Organism(s): enterovirus D68, Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2025-07-24 Released: 2026-07-29 
• Deposition Author(s): Liang, S.J., Lou, Z.Y.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

CryoEM structure of EV-D68 strain Fermon in complex with MFSD6-R196-L226

Liang, S.J., Lou, Z.Y.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 5-mer - A2B1C1D1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 100.36 kDa 
• Atom Count: 6,572 
• Modeled Residue Count: 829 
• Deposited Residue Count: 891 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP1	A	296	enterovirus D68	Mutation(s): 0
UniProt
Find proteins for Q68T42 (Human enterovirus D68) Explore Q68T42  Go to UniProtKB:  Q68T42

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP2	B	248	enterovirus D68	Mutation(s): 0
UniProt
Find proteins for Q68T42 (Human enterovirus D68) Explore Q68T42  Go to UniProtKB:  Q68T42

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP3	C	247	enterovirus D68	Mutation(s): 0  EC: 3.4.22.29 (PDB Primary Data), 3.6.1.15 (PDB Primary Data), 3.4.22.28 (PDB Primary Data), 2.7.7.48 (PDB Primary Data)
UniProt
Find proteins for A0A5B9NN55 (Human enterovirus D68) Explore A0A5B9NN55  Go to UniProtKB:  A0A5B9NN55

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid protein VP4	D	69	enterovirus D68	Mutation(s): 0
UniProt
Find proteins for Q68T42 (Human enterovirus D68) Explore Q68T42  Go to UniProtKB:  Q68T42

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Major facilitator superfamily domain-containing protein 6	E	31	Homo sapiens	Mutation(s): 0  Gene Names: MFSD6, MMR2
UniProt & NIH Common Fund Data Resources
Find proteins for Q6ZSS7 (Homo sapiens) Explore Q6ZSS7  Go to UniProtKB:  Q6ZSS7
GTEx:  ENSG00000151690

Oligosaccharides

Help  

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	D 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)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose	F	6		N/A

Entity ID: 7
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
N-acetyl-alpha-neuraminic acid-(2-6)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	G	3		N/A

Biologically Interesting Molecules (External Reference) 

1 Unique

Entity ID: 7
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900046	G	6'-sialyl-N-acetyllactosamine	Oligosaccharide / Glycan component

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.00 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-07-29 
Deposition Author(s): Liang, S.J., Lou, Z.Y.

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

Revision History  

• Version 1.0: 2026-07-29
  Type: Initial release