9P3M | pdb_00009p3m

Structure of the ANDV dimer of tetramer at conformation II


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.43 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9P3M

This is version 1.3 of the entry. See complete history

Literature

High-resolution in situ structures of hantavirus glycoprotein tetramers.

Guo, L.McFadden, E.Slough, M.M.Stone, E.T.Berrigan, J.Mittler, E.Hatzakis, K.Hinkley, T.Kain, H.S.Ke, Z.Warner, N.L.Erasmus, J.H.Chandran, K.McLellan, J.S.

(2026) Cell 189: 2731

  • DOI: https://doi.org/10.1016/j.cell.2026.01.030
  • Primary Citation Related Structures: 
    9P3I, 9P3L, 9P3M, 9P3X, 9P3Y

  • PubMed Abstract: 

    New World hantaviruses cause severe infections in humans. Previous structural studies have advanced our understanding of hantavirus glycoprotein architecture; however, the lack of high-resolution structures of the glycoprotein tetramer and its lattice organization has limited mechanistic insights into viral assembly and entry. Here, we leveraged a virus-like particle (VLP) system to establish a cryo-electron microscopy workflow for lattice-forming viral glycoproteins. This enabled the determination of a 2.35 Å resolution structure of the membrane-embedded Andes virus (ANDV) glycoprotein tetramer as well as the structures of dimers of tetramers and a complex with antibody ADI-65534. These structures reveal previously uncharacterized features of glycoprotein organization, stability, and pH sensing. The immunization of mice with self-amplifying replicon RNA (repRNA) encoding ANDV-VLPs elicited high levels of glycoprotein-binding antibodies but equivalent titers of neutralizing antibodies compared with the repRNA-encoded native ANDV glycoprotein complex. These findings advance our understanding of hantavirus glycoprotein assemblies, laying a foundation for structure-based vaccine design.


  • Organizational Affiliation
    • Department of Molecular Biosciences, The University of Texas at Austin, Austin, TX 78712, USA.

Macromolecule Content 

  • Total Structure Weight: 1,070.71 kDa 
  • Atom Count: 62,312 
  • Modeled Residue Count: 7,928 
  • Deposited Residue Count: 9,504 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Glycoprotein N
A, C, E, G, I
A, C, E, G, I, K, M, O
651Orthohantavirus andesenseMutation(s): 0 
Gene Names: GPADT63_77597gpMADT63_77598gpM
UniProt
Find proteins for Q9E006 (Andes orthohantavirus)
Explore Q9E006 
Go to UniProtKB:  Q9E006
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9E006
Glycosylation
Glycosylation Sites: 3
Sequence Annotations
Expand
Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Glycoprotein C
B, D, F, H, J
B, D, F, H, J, L, N, P
537Orthohantavirus andesenseMutation(s): 0 
Gene Names: GPADT63_77597gpMADT63_77598gpM
UniProt
Find proteins for Q9E006 (Andes orthohantavirus)
Explore Q9E006 
Go to UniProtKB:  Q9E006
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9E006
Glycosylation
Glycosylation Sites: 1
Sequence Annotations
Expand
Reference Sequence

Oligosaccharides

Help  
Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD 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
CA [auth c],
GA [auth g],
KA [auth k],
OA [auth o],
Q,
CA [auth c],
GA [auth g],
KA [auth k],
OA [auth o],
Q,
SA [auth s],
U,
Y
5N-Glycosylation
Glycosylation Resources
GlyTouCan: G22768VO
GlyCosmos: G22768VO
GlyGen: G22768VO
Entity ID: 4
MoleculeChains Length2D Diagram GlycosylationD Interactions
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
DA [auth d],
HA [auth h],
LA [auth l],
PA [auth p],
R,
DA [auth d],
HA [auth h],
LA [auth l],
PA [auth p],
R,
TA [auth t],
V,
Z
4N-Glycosylation
Glycosylation Resources
GlyTouCan: G81315DD
GlyCosmos: G81315DD
GlyGen: G81315DD
Entity ID: 5
MoleculeChains Length2D Diagram GlycosylationD Interactions
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
AA [auth a],
EA [auth e],
IA [auth i],
MA [auth m],
QA [auth q],
AA [auth a],
EA [auth e],
IA [auth i],
MA [auth m],
QA [auth q],
S,
UA [auth u],
W
4N-Glycosylation
Glycosylation Resources
GlyTouCan: G22573RC
GlyCosmos: G22573RC
GlyGen: G22573RC
Entity ID: 6
MoleculeChains Length2D Diagram GlycosylationD Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
BA [auth b],
FA [auth f],
JA [auth j],
NA [auth n],
RA [auth r],
BA [auth b],
FA [auth f],
JA [auth j],
NA [auth n],
RA [auth r],
T,
VA [auth v],
X
2N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT
GlyCosmos: G42666HT
GlyGen: G42666HT

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.43 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONcryoSPARC4.6.2

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 StatesU19 AI181977

Revision History  (Full details and data files)

  • Version 1.0: 2025-07-30
    Type: Initial release
  • Version 1.1: 2025-11-19
    Changes: Author supporting evidence, Data collection
  • Version 1.2: 2026-03-25
    Changes: Data collection, Database references
  • Version 1.3: 2026-05-13
    Changes: Data collection, Database references