9ZVH | pdb_00009zvh

CryoEM structure of H5N1 A/Texas/37/2024 HA bound to Fab H33

PDB DOI: https://doi.org/10.2210/pdb9ZVH/pdb
EM Map EMD-74873: EMDB EMDataResource

Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Organism(s): Homo sapiens, Influenza A virus
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2025-12-30 Released: 2026-05-27
Deposition Author(s): Morano, N.C., Ho, D.D., Shapiro, L., Kwong, P.D.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.93 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

A Panel of Human Monoclonal Antibodies for Tracking the Antigenic Evolution of Influenza H5N1 Clade 2.3.4.4b

Hong, H., Morano, N.C., Wu, M., Chong, S., Yu, J., Huang, Y., Nair, M.S., Li, Z., Tzang, C.C., Becker, J.E., Wang, C., Shapiro, L., Kwong, P.D., Guo, Y., Ho, D.D.

(2026) bioRxiv

DOI: https://doi.org/10.64898/2026.05.14.725215

Macromolecule Content

Total Structure Weight: 277.45 kDa
Atom Count: 17,141
Modeled Residue Count: 2,115
Deposited Residue Count: 2,403
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
H33 Fab Heavy Chain	A [auth H], F [auth I], H [auth D]	118	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fab H33 Light Chain	B [auth L], G [auth K], I [auth G]	107	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	C [auth A], D [auth B], E [auth C]	576	Influenza A virus	Mutation(s): 0 Gene Names: HA
UniProt
Find proteins for A0AAX6NNG0 (Influenza A virus) Explore A0AAX6NNG0 Go to UniProtKB: A0AAX6NNG0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0AAX6NNG0
Glycosylation
Glycosylation Sites: 2	Glycosylation Focus chain C [auth A] Focus chain D [auth B] Focus chain E [auth C]
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

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Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	J [auth E], K [auth F], L [auth J]	7		N/A	Interactions Focus chain J [auth E] Focus chain K [auth F] Focus chain L [auth J] Interactions & Density Focus chain J [auth E] Focus chain K [auth F] Focus chain L [auth J]

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download:Ideal Coordinates CCD File SDF format, chain O [auth A] SDF format, chain P [auth B] SDF format, chain R [auth B] SDF format, chain S [auth C] SDF format, chain T [auth C] SDF format, chain U [auth C] SDF format, chain Q [auth B] SDF format, chain N [auth A] SDF format, chain M [auth A] MOL2 format, chain O [auth A] MOL2 format, chain P [auth B] MOL2 format, chain R [auth B] MOL2 format, chain S [auth C] MOL2 format, chain T [auth C] MOL2 format, chain U [auth C] MOL2 format, chain Q [auth B] MOL2 format, chain N [auth A] MOL2 format, chain M [auth A] mmCIF format, chain O [auth A] mmCIF format, chain P [auth B] mmCIF format, chain R [auth B] mmCIF format, chain S [auth C] mmCIF format, chain T [auth C] mmCIF format, chain U [auth C] mmCIF format, chain Q [auth B] mmCIF format, chain N [auth A] mmCIF format, chain M [auth A]	M [auth A] N [auth A] O [auth A] P [auth B] Q [auth B] M [auth A], N [auth A], O [auth A], P [auth B], Q [auth B], R [auth B], S [auth C], T [auth C], U [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth C] Interactions & Density Focus chain M [auth A] Focus chain N [auth A] Focus chain O [auth A] Focus chain P [auth B] Focus chain Q [auth B] Focus chain R [auth B] Focus chain S [auth C] Focus chain T [auth C] Focus chain U [auth C]