8TXU | pdb_00008txu

Fab 3864-10 in complex with influenza HA H3-SING16

• PDB DOI: https://doi.org/10.2210/pdb8TXU/pdb
• EM Map EMD-41705: EMDB EMDataResource

• Classification: ANTIVIRAL PROTEIN
• Organism(s): Influenza A virus, Mus musculus
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2023-08-24 Released: 2024-09-11 
• Deposition Author(s): Morano, N.C., Shapiro, L.
• Funding Organization(s): Bill & Melinda Gates Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.22 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

The N terminus of H3-influenza hemagglutinin as a site-of-vulnerability to neutralizing antibody

Rawi, R., Morano, N.C., Cheung, C.S.F., Du, H., Gorman, J., Prabhakaran, M., Becker, J.E., Bylund, T., Charaf, S., Chen, X., Lee, M., Harris, D.R., Olia, A.S., Ou, L., Wang, L., Wang, S., Zhang, B., Kanekiyo, M., McDermott, A.B., Zhou, T., Shapiro, L., Kwong, P.D.

(2025) Structure 

• DOI: https://doi.org/10.1016/j.str.2025.07.015

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.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 351.47 kDa 
• Atom Count: 17,503 
• Modeled Residue Count: 2,163 
• Deposited Residue Count: 3,081 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin HA1 chain	A, C, E [auth G]	350	Influenza A virus	Mutation(s): 0  Gene Names: HA
UniProt
Find proteins for A0A5B8WNB2 (Influenza A virus) Explore A0A5B8WNB2  Go to UniProtKB:  A0A5B8WNB2
Glycosylation
Glycosylation Sites: 3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin HA2	B, D, F [auth I]	232	Influenza A virus	Mutation(s): 0  Gene Names: HA
UniProt
Find proteins for A0A5B8WKM0 (Influenza A virus) Explore A0A5B8WKM0  Go to UniProtKB:  A0A5B8WKM0
Glycosylation
Glycosylation Sites: 1

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab 3864-10 Heavy Chain	G [auth E], I [auth F], K [auth H]	231	Mus musculus	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab 3864-10 Light Chain	H [auth J], J [auth K], L	214	Mus musculus	Mutation(s): 0

Oligosaccharides

Help  

Entity ID: 5
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)-2-acetamido-2-deoxy-beta-D-glucopyranose	M [auth N], N [auth O], P [auth R], Q [auth S], S [auth V], T [auth W]	5		N/A
Glycosylation Resources
GlyTouCan: G22768VO GlyCosmos: G22768VO GlyGen: G22768VO

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	O [auth P], R [auth T], U [auth X]	3		N/A
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	V [auth A], W [auth A], X [auth A], Y [auth A], Z [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.22 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.19.2_4158:
RECONSTRUCTION	Coot

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2024-09-11 
Deposition Author(s): Morano, N.C., Shapiro, L.

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Funding Organization	Location	Grant Number
Bill & Melinda Gates Foundation	United States	FNIH SHAP19IUFV

Revision History  

• Version 1.0: 2024-09-11
  Type: Initial release
  
• Version 1.1: 2024-10-23
  Changes: Data collection, Structure summary
• Version 1.2: 2025-09-24
  Changes: Data collection, Database references