9IJV | pdb_00009ijv

Neuraminidase of A/Switzerland/9715293/2013 H3N2

PDB DOI: https://doi.org/10.2210/pdb9IJV/pdb
EM Map EMD-60644: EMDB EMDataResource

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

Deposited: 2024-06-25 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: 2.42 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9IJV

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

Literature

Neuraminidase of A/Switzerland/9715293/2013 H3N2

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

To be published.

Macromolecule Content

Total Structure Weight: 182.8 kDa
Atom Count: 12,740
Modeled Residue Count: 1,548
Deposited Residue Count: 1,548
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Neuraminidase	A, B, C, D	387	Influenza A virus	Mutation(s): 0 Gene Names: NA EC: 3.2.1.18
UniProt
Find proteins for A0A0N7G9M6 (Influenza A virus) Explore A0A0N7G9M6 Go to UniProtKB: A0A0N7G9M6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0N7G9M6
Glycosylation
Glycosylation Sites: 6	Glycosylation Focus chain A Focus chain B Focus chain C Focus chain D
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E, F, G, I, J E, F, G, I, J, K, M, N, O, Q, R, S	2		N-Glycosylation	Interactions Focus chain E Focus chain F Focus chain G Focus chain I Focus chain J Focus chain K Focus chain M Focus chain N Focus chain O Focus chain Q Focus chain R Focus chain S Interactions & Density Focus chain E Focus chain F Focus chain G Focus chain I Focus chain J Focus chain K Focus chain M Focus chain N Focus chain O Focus chain Q Focus chain R Focus chain S
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[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	H, L, P, T	7		N-Glycosylation	Interactions Focus chain H Focus chain L Focus chain P Focus chain T Interactions & Density Focus chain H Focus chain L Focus chain P Focus chain T
Glycosylation Resources
GlyTouCan: G07617FP GlyCosmos: G07617FP GlyGen: G07617FP

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download:Ideal Coordinates CCD File SDF format, chain Y [auth B] SDF format, chain X [auth B] SDF format, chain V [auth A] SDF format, chain U [auth A] SDF format, chain EA [auth D] SDF format, chain DA [auth D] SDF format, chain BA [auth C] SDF format, chain AA [auth C] MOL2 format, chain Y [auth B] MOL2 format, chain X [auth B] MOL2 format, chain V [auth A] MOL2 format, chain U [auth A] MOL2 format, chain EA [auth D] MOL2 format, chain DA [auth D] MOL2 format, chain BA [auth C] MOL2 format, chain AA [auth C] mmCIF format, chain Y [auth B] mmCIF format, chain X [auth B] mmCIF format, chain V [auth A] mmCIF format, chain U [auth A] mmCIF format, chain EA [auth D] mmCIF format, chain DA [auth D] mmCIF format, chain BA [auth C] mmCIF format, chain AA [auth C]	AA [auth C] BA [auth C] DA [auth D] EA [auth D] U [auth A] AA [auth C], BA [auth C], DA [auth D], EA [auth D], U [auth A], V [auth A], X [auth B], Y [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain AA [auth C] Focus chain BA [auth C] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain U [auth A] Focus chain V [auth A] Focus chain X [auth B] Focus chain Y [auth B] Interactions & Density Focus chain AA [auth C] Focus chain BA [auth C] Focus chain DA [auth D] Focus chain EA [auth D] Focus chain U [auth A] Focus chain V [auth A] Focus chain X [auth B] Focus chain Y [auth B]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain Z [auth B] SDF format, chain W [auth A] SDF format, chain FA [auth D] SDF format, chain CA [auth C] MOL2 format, chain Z [auth B] MOL2 format, chain W [auth A] MOL2 format, chain FA [auth D] MOL2 format, chain CA [auth C] mmCIF format, chain Z [auth B] mmCIF format, chain W [auth A] mmCIF format, chain FA [auth D] mmCIF format, chain CA [auth C]	CA [auth C], FA [auth D], W [auth A], Z [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain CA [auth C] Focus chain FA [auth D] Focus chain W [auth A] Focus chain Z [auth B] Interactions & Density Focus chain CA [auth C] Focus chain FA [auth D] Focus chain W [auth A] Focus chain Z [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.42 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2025-07-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2025-07-02
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.