9N7T | pdb_00009n7t

H5 hemagglutinin (A/Jiangsu/NJ210/2023) in complex with central stem-targeting Fab ST14

PDB DOI: https://doi.org/10.2210/pdb9N7T/pdb
EM Map EMD-49099: EMDB EMDataResource

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

Deposited: 2025-02-06 Released: 2026-02-18
Deposition Author(s): Brouwer, P.J.M., Loeffler, J.R., Ferguson, J.A., Rodriguez, A.J., Han, J., Ward, A.B.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.01 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

Individualized IG genotyping coupled with high throughput isolation of influenza HA-specific monoclonal antibodies

Fisher, A., Corcoran, M., Chernyshev, M., Brouwer, P.J.M., Gillespie, R., Nicoletto, A., Loeffler, J.R., Ferguson, J.A., Rodriguez, A.J., Narang, S., Adori, M., Angeletti, D., van Gils, M.J., Castro Dopico, X., Kanekiyo, M., Ward, A.B., Han, J., Karlsson Hedestam, G.B.

To be published.

Macromolecule Content

Total Structure Weight: 273.44 kDa
Atom Count: 17,262
Modeled Residue Count: 2,154
Deposited Residue Count: 2,397
Unique protein chains: 4

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
H5 HA1	A, E [auth B], I [auth C]	345	Influenza A virus	Mutation(s): 0
UniProt
Find proteins for A0A8E4ZAK5 (Influenza A virus) Explore A0A8E4ZAK5 Go to UniProtKB: A0A8E4ZAK5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A8E4ZAK5
Glycosylation
Glycosylation Sites: 4	Glycosylation Focus chain A Focus chain E [auth B] Focus chain I [auth C]
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ST14 Light Chain Fab	B [auth L], F, J [auth G]	110	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
ST14 Heavy Chain Fab	C [auth H], G [auth D], K [auth E]	124	Homo sapiens	Mutation(s): 0

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
H5 HA2	D [auth a], H [auth I], L [auth J]	220	Influenza A virus	Mutation(s): 0

Oligosaccharides

Help

Entity ID: 5
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	M [auth K], N [auth M], O [auth N], P [auth O], Q [auth P], M [auth K], N [auth M], O [auth N], P [auth O], Q [auth P], R [auth Q]	2		N-Glycosylation	Interactions Focus chain M [auth K] Focus chain N [auth M] Focus chain O [auth N] Focus chain P [auth O] Focus chain Q [auth P] Focus chain R [auth Q] Interactions & Density Focus chain M [auth K] Focus chain N [auth M] Focus chain O [auth N] Focus chain P [auth O] Focus chain Q [auth P] Focus chain R [auth Q]
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

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 Z [auth C] SDF format, chain Y [auth C] SDF format, chain X [auth B] SDF format, chain W [auth B] SDF format, chain V [auth B] SDF format, chain U [auth A] SDF format, chain T [auth A] SDF format, chain S [auth A] SDF format, chain AA [auth C] MOL2 format, chain Z [auth C] MOL2 format, chain Y [auth C] MOL2 format, chain X [auth B] MOL2 format, chain W [auth B] MOL2 format, chain V [auth B] MOL2 format, chain U [auth A] MOL2 format, chain T [auth A] MOL2 format, chain S [auth A] MOL2 format, chain AA [auth C] mmCIF format, chain Z [auth C] mmCIF format, chain Y [auth C] mmCIF format, chain X [auth B] mmCIF format, chain W [auth B] mmCIF format, chain V [auth B] mmCIF format, chain U [auth A] mmCIF format, chain T [auth A] mmCIF format, chain S [auth A] mmCIF format, chain AA [auth C]	AA [auth C] S [auth A] T [auth A] U [auth A] V [auth B] AA [auth C], S [auth A], T [auth A], U [auth A], V [auth B], W [auth B], X [auth B], Y [auth C], Z [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain AA [auth C] Focus chain S [auth A] Focus chain T [auth A] Focus chain U [auth A] Focus chain V [auth B] Focus chain W [auth B] Focus chain X [auth B] Focus chain Y [auth C] Focus chain Z [auth C] Interactions & Density Focus chain AA [auth C] Focus chain S [auth A] Focus chain T [auth A] Focus chain U [auth A] Focus chain V [auth B] Focus chain W [auth B] Focus chain X [auth B] Focus chain Y [auth C] Focus chain Z [auth C]