8TOA

CryoEM structure of H7 hemagglutinin from A/Shanghai2/2013 H7N9 in complex with a human neutralizing antibody H7.HK2

PDB DOI: https://doi.org/10.2210/pdb8TOA/pdb
EM Map EMD-41441: EMDB EMDataResource

Classification: VIRAL PROTEIN/IMMUNE SYSTEM
Organism(s): Homo sapiens, Influenza A virus (A/Shanghai/02/2013(H7N9))
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2023-08-03 Released: 2024-05-15
Deposition Author(s): Morano, N.C., Becker, J.E., Wu, X., Shapiro, L.
Funding Organization(s): Bill & Melinda Gates Foundation

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.69 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

CryoEM structure of H7 hemagglutinin from A/Shanghai2/2013 H7N9 in complex with a human neutralizing antibody H7.HK1

Morano, N.C., Wu, X., Shapiro, L.

To be published.

Macromolecule Content

Total Structure Weight: 267.54 kDa
Atom Count: 16,570
Modelled Residue Count: 2,109
Deposited Residue Count: 2,391
Unique protein chains: 3

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
H7.HK2 Neutralizing Antibody Heavy Chain	A [auth H], C [auth D], E [auth A]	119	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
H7.HK2 Neutralizing Antibody Light Chain	B [auth L], D [auth E], F [auth B]	112	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain B [auth L] Focus chain D [auth E] Focus chain F [auth B]
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemagglutinin	G [auth C], H [auth I], I [auth K]	566	Influenza A virus (A/Shanghai/02/2013(H7N9))	Mutation(s): 0 Gene Names: HA
UniProt
Find proteins for R4NN21 (Influenza A virus) Explore R4NN21 Go to UniProtKB: R4NN21
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	R4NN21
Glycosylation
Glycosylation Sites: 3	Glycosylation Focus chain G [auth C] Focus chain H [auth I] Focus chain I [auth K]
Sequence Annotations Expand
Reference Sequence

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 J [auth L] SDF format, chain K [auth E] SDF format, chain L [auth B] SDF format, chain M [auth C] SDF format, chain N [auth C] SDF format, chain O [auth C] SDF format, chain P [auth I] SDF format, chain Q [auth I] SDF format, chain R [auth I] SDF format, chain S [auth K] SDF format, chain T [auth K] MOL2 format, chain J [auth L] MOL2 format, chain K [auth E] MOL2 format, chain L [auth B] MOL2 format, chain M [auth C] MOL2 format, chain N [auth C] MOL2 format, chain O [auth C] MOL2 format, chain P [auth I] MOL2 format, chain Q [auth I] MOL2 format, chain R [auth I] MOL2 format, chain S [auth K] MOL2 format, chain T [auth K]	J [auth L] K [auth E] L [auth B] M [auth C] N [auth C] J [auth L], K [auth E], L [auth B], M [auth C], N [auth C], O [auth C], P [auth I], Q [auth I], R [auth I], S [auth K], T [auth K]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain J [auth L] Focus chain K [auth E] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth C] Focus chain O [auth C] Focus chain P [auth I] Focus chain Q [auth I] Focus chain R [auth I] Focus chain S [auth K] Focus chain T [auth K] Interactions & Density Focus chain J [auth L] Focus chain K [auth E] Focus chain L [auth B] Focus chain M [auth C] Focus chain N [auth C] Focus chain O [auth C] Focus chain P [auth I] Focus chain Q [auth I] Focus chain R [auth I] Focus chain S [auth K] Focus chain T [auth K]