9DB3 | pdb_00009db3

Molecular basis of pathogenicity of the recently emerged FCoV-23 coronavirus. FCoV-23 S long with Do in swung-out conformation


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Loss of FCoV-23 spike domain 0 enhances fusogenicity and entry kinetics.

Tortorici, M.A.Choi, A.Gibson, C.A.Lee, J.Brown, J.T.Stewart, C.Joshi, A.Harari, S.Willoughby, I.Treichel, C.Leaf, E.M.Bloom, J.D.King, N.P.Tait-Burkard, C.Whittaker, G.R.Veesler, D.

(2025) Nature 645: 235-243

  • DOI: https://doi.org/10.1038/s41586-025-09155-z
  • Primary Citation of Related Structures:  
    9DAZ, 9DB0, 9DB1, 9DB3, 9DBE, 9DBZ

  • PubMed Abstract: 

    The ability of coronaviruses to recombine and cross species barriers affects human and animal health globally and is a pandemic threat 1,2 . FCoV-23 is a recently emerged, highly pathogenic recombinant coronavirus responsible for a widespread outbreak of feline infectious peritonitis. Here we report cryogenic electron microscopy structures of two FCoV-23 spike isoforms that correspond to the in-host loss of domain 0 observed in clinical samples. The loss of domain 0 markedly enhances the fusogenicity and kinetics of entry into cells and possibly enables biotype switching and lethality. We show that FCoV-23 can use several aminopeptidase N orthologues as receptors and reveal the molecular determinants of receptor species tropism, including a glycan that modulates human receptor engagement. We define antigenic relationships among alphacoronaviruses that infect humans and other mammalian species and identify a cross-reactive alphacoronavirus monoclonal antibody that inhibits FCoV-23 entry. Our results pave the way for the development of vaccines and therapeutics that target this highly pathogenic virus.


  • Organizational Affiliation
    • Department of Biochemistry, University of Washington, Seattle, WA, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
FCoV-23 S long with Do in swung-out conformation
A, B, C
1,473Feline coronavirusMutation(s): 0 
UniProt
Find proteins for Q0ZVX5 (Canine coronavirus)
Explore Q0ZVX5 
Go to UniProtKB:  Q0ZVX5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ0ZVX5
Glycosylation
Glycosylation Sites: 28
Sequence Annotations
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 2
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
AA [auth a],
BA [auth b],
CA [auth c],
D,
DA [auth d],
AA [auth a],
BA [auth b],
CA [auth c],
D,
DA [auth d],
EA [auth e],
FA [auth f],
G,
H,
I,
IA [auth i],
JA [auth j],
K,
KA [auth k],
M,
MA [auth m],
N,
O,
OA [auth o],
P,
PA [auth p],
Q,
QA [auth q],
R,
RA [auth r],
SA [auth s],
U,
V,
W,
Y
2N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
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
E,
GA [auth g],
L,
NA [auth n],
S,
E,
GA [auth g],
L,
NA [auth n],
S,
Z
5N-Glycosylation
Glycosylation Resources
GlyTouCan:  G22768VO
GlyCosmos:  G22768VO
GlyGen:  G22768VO
Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
F,
HA [auth h],
J,
LA [auth l],
T,
F,
HA [auth h],
J,
LA [auth l],
T,
X
3N-Glycosylation
Glycosylation Resources
GlyTouCan:  G15407YE
GlyCosmos:  G15407YE
GlyGen:  G15407YE
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PAM (Subject of Investigation/LOI)
Query on PAM

Download Ideal Coordinates CCD File 
FB [auth A]
GB [auth A]
JB [auth A]
MC [auth C]
WB [auth B]
FB [auth A],
GB [auth A],
JB [auth A],
MC [auth C],
WB [auth B],
ZB [auth B]
PALMITOLEIC ACID
C16 H30 O2
SECPZKHBENQXJG-FPLPWBNLSA-N
NAG (Subject of Investigation/LOI)
Query on NAG

Download Ideal Coordinates CCD File 
AB [auth A]
AC [auth C]
BB [auth A]
BC [auth C]
CB [auth A]
AB [auth A],
AC [auth C],
BB [auth A],
BC [auth C],
CB [auth A],
CC [auth C],
DB [auth A],
DC [auth C],
EB [auth A],
EC [auth C],
FC [auth C],
GC [auth C],
HB [auth A],
HC [auth C],
IB [auth A],
IC [auth C],
JC [auth C],
KB [auth B],
KC [auth C],
LB [auth B],
LC [auth C],
MB [auth B],
NB [auth B],
NC [auth C],
OB [auth B],
OC [auth C],
PB [auth B],
QB [auth B],
RB [auth B],
SB [auth B],
TA [auth A],
TB [auth B],
UA [auth A],
UB [auth B],
VA [auth A],
VB [auth B],
WA [auth A],
XA [auth A],
XB [auth B],
YA [auth A],
YB [auth B],
ZA [auth A]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)United StatesAI158186

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-09
    Type: Initial release
  • Version 1.1: 2025-07-23
    Changes: Data collection, Database references
  • Version 1.2: 2025-09-17
    Changes: Data collection, Database references