8YVK | pdb_00008yvk

Neuraminidase of A/Red knot/Delaware Bay/310/2016 H10N4 in complex with CAV-F6 Fab

PDB DOI: https://doi.org/10.2210/pdb8YVK/pdb
EM Map EMD-39605: EMDB EMDataResource

Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Organism(s): Influenza A virus (A/red knot/Delaware Bay/310/2016(H10N4)), Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2024-03-28 Released: 2025-07-02
Deposition Author(s): Wang, X., Ge, J., Li, X.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.09 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

Neuraminidase of A/Red knot/Delaware Bay/310/2016 H10N4 in complex with CAV-F6 Fab

Wang, X., Ge, J., Li, X.

To be published.

Macromolecule Content

Total Structure Weight: 273.13 kDa
Atom Count: 19,164
Modeled Residue Count: 2,476
Deposited Residue Count: 2,476
Unique protein chains: 3

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neuraminidase	A, B, C, D	389	Influenza A virus (A/red knot/Delaware Bay/310/2016(H10N4))	Mutation(s): 0 Gene Names: NA EC: 3.2.1.18
UniProt
Find proteins for A0A248T7C3 (Influenza A virus) Explore A0A248T7C3 Go to UniProtKB: A0A248T7C3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A248T7C3
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain B Focus chain C Focus chain D
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
CAV-F6 heavy chain	E, G, I, K	123	Homo sapiens	Mutation(s): 0

Find similar proteins by:

| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
CAV-F6 kappa chain	F, H, J, L	107	Homo sapiens	Mutation(s): 0

Small Molecules

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