7B09 | pdb_00007b09

Puumala virus glycoprotein (Gc) in complex with fab fragment P-4G2.

• PDB DOI: https://doi.org/10.2210/pdb7B09/pdb
• EM Map EMD-11964: EMDB EMDataResource

• Classification: VIRUS LIKE PARTICLE
• Organism(s): Myodes glareolus, Orthohantavirus puumalaense
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2020-11-19 Released: 2020-12-16 
• Deposition Author(s): Rissanen, I., Stass, R., Huiskonen, J.T., Bowden, T.A.
• Funding Organization(s): European Research Council (ERC)

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 13.4 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

Literature

Molecular rationale for antibody-mediated targeting of the hantavirus fusion glycoprotein.

Rissanen, I., Stass, R., Krumm, S.A., Seow, J., Hulswit, R.J., Paesen, G.C., Hepojoki, J., Vapalahti, O., Lundkvist, A., Reynard, O., Volchkov, V., Doores, K.J., Huiskonen, J.T., Bowden, T.A.

(2020) Elife 9

• PubMed: 33349334 
• DOI: https://doi.org/10.7554/eLife.58242
• Primary Citation Related Structures: 
  6Z06, 7B09, 7B0A


• PubMed Abstract: 
  

  The intricate lattice of Gn and Gc glycoprotein spike complexes on the hantavirus envelope facilitates host-cell entry and is the primary target of the neutralizing antibody-mediated immune response. Through study of a neutralizing monoclonal antibody termed mAb P-4G2, which neutralizes the zoonotic pathogen Puumala virus (PUUV), we provide a molecular-level basis for antibody-mediated targeting of the hantaviral glycoprotein lattice. Crystallographic analysis demonstrates that P-4G2 binds to a multi-domain site on PUUV Gc and may preclude fusogenic rearrangements of the glycoprotein that are required for host-cell entry. Furthermore, cryo-electron microscopy of PUUV-like particles in the presence of P-4G2 reveals a lattice-independent configuration of the Gc, demonstrating that P-4G2 perturbs the (Gn-Gc) ₄ lattice. This work provides a structure-based blueprint for rationalizing antibody-mediated targeting of hantaviruses.

---

Organizational Affiliation: 
• Division of Structural Biology, Wellcome Centre for Human Genetics, University of Oxford, Oxford, United Kingdom.
Helsinki Institute of Life Science HiLIFE, University of Helsinki, Helsinki, Finland.
Molecular and Integrative Biosciences Research Programme, The Faculty of Biological and Environmental Sciences, University of Helsinki, Helsinki, Finland.
Department of Infectious Diseases, King's College London, Guy's Hospital, London, United Kingdom.
Institute of Veterinary Pathology, Vetsuisse Faculty, University of Zürich, Zürich, Switzerland.
Department of Virology, Medicum, Faculty of Medicine, University of Helsinki, Helsinki, Finland.
Departments of Virology and Veterinary Biosciences, University of Helsinki and HUSLAB, Helsinki University Hospital, Helsinki, Finland.
Zoonosis Science Center, Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden.
CIRI, Centre International de Recherche en Infectiologie, INSERM U1111, CNRS UMR5308, Université Lyon, Lyon, France.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 140.18 kDa 
• Atom Count: 9,073 
• Modeled Residue Count: 1,178 
• Deposited Residue Count: 1,274 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Heavy chain of fab fragment P-4G2	A [auth H]	231	Myodes glareolus	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Light chain of fab fragment P-4G2	B [auth L]	216	Myodes glareolus	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope polyprotein	C [auth A]	460	Orthohantavirus puumalaense	Mutation(s): 0  Gene Names: gpc
UniProt
Find proteins for Q9WJ31 (Orthohantavirus puumalaense) Explore Q9WJ31  Go to UniProtKB:  Q9WJ31
Glycosylation
Glycosylation Sites: 1

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Envelope polyprotein	D [auth B]	367	Orthohantavirus puumalaense	Mutation(s): 0  Gene Names: gpc
UniProt
Find proteins for Q9WJ31 (Orthohantavirus puumalaense) Explore Q9WJ31  Go to UniProtKB:  Q9WJ31
Glycosylation
Glycosylation Sites: 2

Oligosaccharides

Help  

Entity ID: 5
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 [auth C]	2		N-Glycosylation
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Entity ID: 6
Molecule	Chains	Length	2D Diagram	Glycosylation	D 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	F [auth E]	4		N-Glycosylation
Glycosylation Resources
GlyTouCan: G81315DD GlyCosmos: G81315DD GlyGen: G81315DD

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	G [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: 13.4 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SUBTOMOGRAM AVERAGING 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	Dynamo

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-12-16 
Deposition Author(s): Rissanen, I., Stass, R., Huiskonen, J.T., Bowden, T.A.

---

Funding Organization	Location	Grant Number
European Research Council (ERC)	United Kingdom	649053

Revision History  

• Version 1.0: 2020-12-16
  Type: Initial release
  
• Version 1.1: 2021-01-13
  Changes: Database references
• Version 1.2: 2024-11-13
  Changes: Data collection, Database references, Structure summary