9U06 | pdb_00009u06

6B5 (Fab) - Polio 3 (VLP) complex

• PDB DOI: https://doi.org/10.2210/pdb9U06/pdb
• EM Map EMD-56483: EMDB EMDataResource

• Classification: VIRUS LIKE PARTICLE
• Organism(s): Poliovirus 3, Homo sapiens
• Expression System: Komagataella pastoris, Homo sapiens
• Mutation(s): Yes 


• Deposited: 2026-01-26 Released: 2026-09-30 
• Deposition Author(s): Bahar, M.W., Fry, E.E., Stuart, D.I.
• Funding Organization(s): Bill & Melinda Gates Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 1.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental, in silico

Literature

6B5 (Fab) - Polio 3 (VLP) complex

Bahar, M.W., Stonehouse, N.J., Rowlands, D.J., Fry, E.E., Stuart, D.I.

To be published.

Biological Assembly 1  

Global Symmetry: Icosahedral - I  (Explore in 3D)
Global Stoichiometry: Hetero 300-mer - A60B60C60D60E60 Pseudo Symmetry: Icosahedral - I  (Explore in 3D)
Pseudo Stoichiometry: Hetero 300-mer - A120B120C60 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 175.48 kDa 
• Atom Count: 8,350 
• Modeled Residue Count: 1,011 
• Deposited Residue Count: 1,591 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid proteins, VP1	A	300	Poliovirus 3	Mutation(s): 2
UniProt
Find proteins for Q84895 (Poliovirus 3) Explore Q84895  Go to UniProtKB:  Q84895

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid proteins, VP0	B	340	Poliovirus 3	Mutation(s): 4
UniProt
Find proteins for Q84895 (Poliovirus 3) Explore Q84895  Go to UniProtKB:  Q84895

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Capsid proteins, VP3	C	238	Poliovirus 3	Mutation(s): 2
UniProt
Find proteins for Q84895 (Poliovirus 3) Explore Q84895  Go to UniProtKB:  Q84895

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
6B5 Fab Heavy chain	D [auth H]	478	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
6B5 Fab Light chain	E [auth L]	235	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SPH (Subject of Investigation/LOI)	F [auth A]	SPHINGOSINE C18 H37 N O2 WWUZIQQURGPMPG-MSOLQXFVSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 1.80 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC	4.3.1

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2026-09-30 
Deposition Author(s): Bahar, M.W., Fry, E.E., Stuart, D.I.

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Funding Organization	Location	Grant Number
Bill & Melinda Gates Foundation	United States	RG.IMCB.I8-TSA-083

Revision History  

• Version 1.0: 2026-09-30
  Type: Initial release