9CB1 | pdb_00009cb1

Cryo-EM Structure of the Human Neutralizing Antibody 5-1 in Complex with Prefusion Human Metapneumovirus F Glycoprotein

• PDB DOI: https://doi.org/10.2210/pdb9CB1/pdb
• EM Map EMD-45412: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): Homo sapiens, human metapneumovirus
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2024-06-18 Released: 2025-05-28 
• Deposition Author(s): Guo, L.Q., McLellan, J.S.
• Funding Organization(s): Welch Foundation

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 4.24 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Potent cross-neutralizing RSV/hMPV antibody targeting antigenic site V

Abu-Shmais, A.A., Guo, L.Q., Miller, R.J., Janke, J.K., Vukovich, M.J., Lindsay, E.B., Rush, S.A., Wolter, R.M., Kose, N., Carnahan, R.H., Crowe, J.E., Bonami, R.H., Mousa, J.J., McLellan, J.S., Georgiev, I.S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 9-mer - A3B3C3 Pseudo Symmetry: Cyclic - C3  (Explore in 3D)
Pseudo Stoichiometry: Hetero 9-mer - A6B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 323.01 kDa 
• Atom Count: 15,105 
• Modeled Residue Count: 1,968 
• Deposited Residue Count: 2,952 
• Unique protein chains: 3

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
5-1 Fab Heavy Chain Variable Domain	A, B, C	219	Homo sapiens	Mutation(s): 0

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
5-1 Fab Light Chain Variable Domain	D, E, F	214	Homo sapiens	Mutation(s): 0

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0	G, H, I	551	human metapneumovirus	Mutation(s): 16
UniProt
Find proteins for Q8B9P0 (human metapneumovirus) Explore Q8B9P0  Go to UniProtKB:  Q8B9P0
Glycosylation
Glycosylation Sites: 1

Oligosaccharides

Help

Entity ID: 4
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	J, K, L	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 4.24 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.1_5286

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-05-28 
Deposition Author(s): Guo, L.Q., McLellan, J.S.

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Funding Organization	Location	Grant Number
Welch Foundation	United States	F-0003-19620604

Revision History  

• Version 1.0: 2025-05-28
  Type: Initial release