8F6X | pdb_00008f6x

cryo-EM structure of a structurally designed Human metapneumovirus F protein in complex with antibody MPE8

• PDB DOI: https://doi.org/10.2210/pdb8F6X/pdb
• EM Map EMD-28891: EMDB EMDataResource

• Classification: VIRAL PROTEIN/IMMUNE SYSTEM
• Organism(s): human metapneumovirus, Escherichia phage T2, Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2022-11-17 Released: 2023-08-02 
• Deposition Author(s): Zhou, T., Kwong, P.D., Morano, N.C., Ou, L.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.25 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

cryo-EM structure of a structurally designed Human metapneumovirus F protein in complex with antibody MPE8

Ou, L., Kwong, P.D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Hetero 6-mer - A3B3 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 267.37 kDa 
• Atom Count: 14,952 
• Modeled Residue Count: 1,980 
• Deposited Residue Count: 2,484 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Structurally designed HMPV F protein HMPV_v3B_D12_DS454,Fibritin	A, B, C	522	human metapneumovirus, Escherichia phage T2	Mutation(s): 7
UniProt
Find proteins for G3KCK8 (human metapneumovirus) Explore G3KCK8  Go to UniProtKB:  G3KCK8
Find proteins for P10104 (Enterobacteria phage T4) Explore P10104  Go to UniProtKB:  P10104
UniProt Groups	G3KCK8P10104
Glycosylation
Glycosylation Sites: 1

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MPE8 Single chain variable fragment	D, E, F	306	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	G [auth A], H [auth B], I [auth C]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.25 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-02 
Deposition Author(s): Zhou, T., Kwong, P.D., Morano, N.C., Ou, L.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History  

• Version 1.0: 2023-08-02
  Type: Initial release
  
• Version 1.1: 2024-10-23
  Changes: Data collection, Structure summary
• Version 1.2: 2025-05-21
  Changes: Data collection