9U93 | pdb_00009u93

Cryo-EM structure of Fusobacterium nucleatum CbpF in complex with human CEACAM5

• PDB DOI: https://doi.org/10.2210/pdb9U93/pdb
• EM Map EMD-63958: EMDB EMDataResource

• Classification: CELL ADHESION
• Organism(s): Fusobacterium nucleatum, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2025-03-27 Released: 2025-09-03 
• Deposition Author(s): Li, L.J., Shen, F., Zhao, X., Gao, G.F.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Structural basis of Fusobacterium nucleatum CbpF binding to human CEACAM1 and CEACAM5

Shen, F., Li, L.J., Zhao, X., Gao, G.F.

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 and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 156.84 kDa 
• Atom Count: 8,376 
• Modeled Residue Count: 1,113 
• Deposited Residue Count: 1,470 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusobacterium nucleatum CbpF	A [auth C], C [auth B], E [auth A]	342	Fusobacterium nucleatum	Mutation(s): 0
UniProt
Find proteins for A0A0M4S4Q9 (Fusobacterium nucleatum subsp. nucleatum) Explore A0A0M4S4Q9  Go to UniProtKB:  A0A0M4S4Q9

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell adhesion molecule CEACAM5	B [auth F], D, F [auth E]	148	Homo sapiens	Mutation(s): 0  Gene Names: CEACAM5, CEA
UniProt & NIH Common Fund Data Resources
Find proteins for P06731 (Homo sapiens) Explore P06731  Go to UniProtKB:  P06731
PHAROS:  P06731 GTEx:  ENSG00000105388

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.40 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.20.1_4487
RECONSTRUCTION	cryoSPARC

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-09-03 
Deposition Author(s): Li, L.J., Shen, F., Zhao, X., Gao, G.F.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History  

• Version 1.0: 2025-09-03
  Type: Initial release