22OV | pdb_000022ov

SARS-CoV-2 BA.3.2.2(RE.2.2) spike protein

PDB DOI: https://doi.org/10.2210/pdb22OV/pdb
EM Map EMD-68575: EMDB EMDataResource

Classification: VIRAL PROTEIN
Organism(s): Severe acute respiratory syndrome coronavirus 2
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2026-01-19 Released: 2026-08-05
Deposition Author(s): Li, L.J., Qu, H., Wu, Q.L., Gao, G.F.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.37 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 22OV

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

Literature

Receptor Binding, Immune Escape, and Cross-Species Transmission of SARS-CoV-2 Serum-Defined Lineage 7, BA.3.2.2(RE.2.2)

Li, L.J., Qu, H., Wu, Q.L., Gao, G.F.

To be published.

Macromolecule Content

Total Structure Weight: 442.67 kDa
Atom Count: 26,964
Modeled Residue Count: 3,207
Deposited Residue Count: 3,723
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spike glycoprotein	A, B, C	1,241	Severe acute respiratory syndrome coronavirus 2	Mutation(s): 0 Gene Names: S, 2
UniProt
Find proteins for P0DTC2 (Severe acute respiratory syndrome coronavirus 2) Explore P0DTC2 Go to UniProtKB: P0DTC2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0DTC2
Glycosylation
Glycosylation Sites: 21	Glycosylation Focus chain A Focus chain B Focus chain C	Go to GlyGen: P0DTC2-1
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	AA [auth a], D, DA [auth d], E, EA [auth e], AA [auth a], D, DA [auth d], E, EA [auth e], J, JA [auth j], N, NA [auth n], Q, R, W	2		N-Glycosylation	Interactions Focus chain AA [auth a] Focus chain D Focus chain DA [auth d] Focus chain E Focus chain EA [auth e] Focus chain J Focus chain JA [auth j] Focus chain N Focus chain NA [auth n] Focus chain Q Focus chain R Focus chain W Interactions & Density Focus chain AA [auth a] Focus chain D Focus chain DA [auth d] Focus chain E Focus chain EA [auth e] Focus chain J Focus chain JA [auth j] Focus chain N Focus chain NA [auth n] Focus chain Q Focus chain R Focus chain W
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	BA [auth b], CA [auth c], F, FA [auth f], H, BA [auth b], CA [auth c], F, FA [auth f], H, HA [auth h], I, IA [auth i], K, KA [auth k], L, LA [auth l], M, MA [auth m], O, OA [auth o], P, PA [auth p], S, U, V, X, Y, Z	3		N-Glycosylation	Interactions Focus chain BA [auth b] Focus chain CA [auth c] Focus chain F Focus chain FA [auth f] Focus chain H Focus chain HA [auth h] Focus chain I Focus chain IA [auth i] Focus chain K Focus chain KA [auth k] Focus chain L Focus chain LA [auth l] Focus chain M Focus chain MA [auth m] Focus chain O Focus chain OA [auth o] Focus chain P Focus chain PA [auth p] Focus chain S Focus chain U Focus chain V Focus chain X Focus chain Y Focus chain Z Interactions & Density Focus chain BA [auth b] Focus chain CA [auth c] Focus chain F Focus chain FA [auth f] Focus chain H Focus chain HA [auth h] Focus chain I Focus chain IA [auth i] Focus chain K Focus chain KA [auth k] Focus chain L Focus chain LA [auth l] Focus chain M Focus chain MA [auth m] Focus chain O Focus chain OA [auth o] Focus chain P Focus chain PA [auth p] Focus chain S Focus chain U Focus chain V Focus chain X Focus chain Y Focus chain Z
Glycosylation Resources
GlyTouCan: G15407YE GlyCosmos: G15407YE GlyGen: G15407YE

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
alpha-D-mannopyranose-(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	G, GA [auth g], T	5		N-Glycosylation	Interactions Focus chain G Focus chain GA [auth g] Focus chain T Interactions & Density Focus chain G Focus chain GA [auth g] Focus chain T
Glycosylation Resources
GlyTouCan: G42227JK GlyCosmos: G42227JK GlyGen: G42227JK

Small Molecules

Ligands 1 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 ZA [auth B] SDF format, chain YA [auth B] SDF format, chain XA [auth A] SDF format, chain WA [auth A] SDF format, chain VA [auth A] SDF format, chain UA [auth A] SDF format, chain TA [auth A] SDF format, chain SA [auth A] SDF format, chain RA [auth A] SDF format, chain QA [auth A] SDF format, chain NB [auth C] SDF format, chain MB [auth C] SDF format, chain LB [auth C] SDF format, chain KB [auth C] SDF format, chain JB [auth C] SDF format, chain IB [auth C] SDF format, chain HB [auth C] SDF format, chain GB [auth C] SDF format, chain FB [auth B] SDF format, chain EB [auth B] SDF format, chain DB [auth B] SDF format, chain CB [auth B] SDF format, chain BB [auth B] SDF format, chain AB [auth B] MOL2 format, chain ZA [auth B] MOL2 format, chain YA [auth B] MOL2 format, chain XA [auth A] MOL2 format, chain WA [auth A] MOL2 format, chain VA [auth A] MOL2 format, chain UA [auth A] MOL2 format, chain TA [auth A] MOL2 format, chain SA [auth A] MOL2 format, chain RA [auth A] MOL2 format, chain QA [auth A] MOL2 format, chain NB [auth C] MOL2 format, chain MB [auth C] MOL2 format, chain LB [auth C] MOL2 format, chain KB [auth C] MOL2 format, chain JB [auth C] MOL2 format, chain IB [auth C] MOL2 format, chain HB [auth C] MOL2 format, chain GB [auth C] MOL2 format, chain FB [auth B] MOL2 format, chain EB [auth B] MOL2 format, chain DB [auth B] MOL2 format, chain CB [auth B] MOL2 format, chain BB [auth B] MOL2 format, chain AB [auth B] mmCIF format, chain ZA [auth B] mmCIF format, chain YA [auth B] mmCIF format, chain XA [auth A] mmCIF format, chain WA [auth A] mmCIF format, chain VA [auth A] mmCIF format, chain UA [auth A] mmCIF format, chain TA [auth A] mmCIF format, chain SA [auth A] mmCIF format, chain RA [auth A] mmCIF format, chain QA [auth A] mmCIF format, chain NB [auth C] mmCIF format, chain MB [auth C] mmCIF format, chain LB [auth C] mmCIF format, chain KB [auth C] mmCIF format, chain JB [auth C] mmCIF format, chain IB [auth C] mmCIF format, chain HB [auth C] mmCIF format, chain GB [auth C] mmCIF format, chain FB [auth B] mmCIF format, chain EB [auth B] mmCIF format, chain DB [auth B] mmCIF format, chain CB [auth B] mmCIF format, chain BB [auth B] mmCIF format, chain AB [auth B]	AB [auth B] BB [auth B] CB [auth B] DB [auth B] EB [auth B] AB [auth B], BB [auth B], CB [auth B], DB [auth B], EB [auth B], FB [auth B], GB [auth C], HB [auth C], IB [auth C], JB [auth C], KB [auth C], LB [auth C], MB [auth C], NB [auth C], QA [auth A], RA [auth A], SA [auth A], TA [auth A], UA [auth A], VA [auth A], WA [auth A], XA [auth A], YA [auth B], ZA [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain AB [auth B] Focus chain BB [auth B] Focus chain CB [auth B] Focus chain DB [auth B] Focus chain EB [auth B] Focus chain FB [auth B] Focus chain GB [auth C] Focus chain HB [auth C] Focus chain IB [auth C] Focus chain JB [auth C] Focus chain KB [auth C] Focus chain LB [auth C] Focus chain MB [auth C] Focus chain NB [auth C] Focus chain QA [auth A] Focus chain RA [auth A] Focus chain SA [auth A] Focus chain TA [auth A] Focus chain UA [auth A] Focus chain VA [auth A] Focus chain WA [auth A] Focus chain XA [auth A] Focus chain YA [auth B] Focus chain ZA [auth B] Interactions & Density Focus chain AB [auth B] Focus chain BB [auth B] Focus chain CB [auth B] Focus chain DB [auth B] Focus chain EB [auth B] Focus chain FB [auth B] Focus chain GB [auth C] Focus chain HB [auth C] Focus chain IB [auth C] Focus chain JB [auth C] Focus chain KB [auth C] Focus chain LB [auth C] Focus chain MB [auth C] Focus chain NB [auth C] Focus chain QA [auth A] Focus chain RA [auth A] Focus chain SA [auth A] Focus chain TA [auth A] Focus chain UA [auth A] Focus chain VA [auth A] Focus chain WA [auth A] Focus chain XA [auth A] Focus chain YA [auth B] Focus chain ZA [auth B]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.37 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	"2.0_5885"
RECONSTRUCTION	cryoSPARC

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-08-05

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2026-08-05
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.