9GH5 | pdb_00009gh5

Complex of Fusobacterium nucleatum CbpF with human CEACAM1

PDB DOI: https://doi.org/10.2210/pdb9GH5/pdb
EM Map EMD-51347: EMDB EMDataResource

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

Deposited: 2024-08-15 Released: 2025-04-02
Deposition Author(s): Marongiu, G.L., Fink, U., Roderer, D.
Funding Organization(s): Leibniz Association

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.70 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Structural basis for immune cell binding of Fusobacterium nucleatum via the trimeric autotransporter adhesin CbpF

Marongiu, G.L., Fink, U., Oder, A., von Kries, J.P., Roderer, D.

To be published.

Macromolecule Content

Total Structure Weight: 291.92 kDa
Atom Count: 10,383
Modelled Residue Count: 1,347
Deposited Residue Count: 2,667
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cell surface protein	A, B, C	489	Fusobacterium nucleatum	Mutation(s): 0 Gene Names: FN1499
UniProt
Find proteins for Q8RIS0 (Fusobacterium nucleatum subsp. nucleatum (strain ATCC 25586 / DSM 15643 / BCRC 10681 / CIP 101130 / JCM 8532 / KCTC 2640 / LMG 13131 / VPI 4355)) Explore Q8RIS0 Go to UniProtKB: Q8RIS0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8RIS0
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Carcinoembryonic antigen-related cell adhesion molecule 1	D, E, F	400	Homo sapiens	Mutation(s): 0 Gene Names: CEACAM1, BGP, BGP1
UniProt & NIH Common Fund Data Resources
Find proteins for P13688 (Homo sapiens) Explore P13688 Go to UniProtKB: P13688
PHAROS: P13688 GTEx: ENSG00000079385
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P13688
Glycosylation
Glycosylation Sites: 6	Glycosylation Focus chain D Focus chain E Focus chain F	Go to GlyGen: P13688-1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain G [auth D] SDF format, chain H [auth D] SDF format, chain I [auth D] SDF format, chain K [auth D] SDF format, chain L [auth D] SDF format, chain M [auth E] SDF format, chain N [auth E] SDF format, chain O [auth E] SDF format, chain P [auth E] SDF format, chain Q [auth E] SDF format, chain R [auth E] SDF format, chain S [auth F] SDF format, chain T [auth F] SDF format, chain U [auth F] SDF format, chain V [auth F] SDF format, chain W [auth F] SDF format, chain X [auth F] SDF format, chain J [auth D] MOL2 format, chain G [auth D] MOL2 format, chain H [auth D] MOL2 format, chain I [auth D] MOL2 format, chain K [auth D] MOL2 format, chain L [auth D] MOL2 format, chain M [auth E] MOL2 format, chain N [auth E] MOL2 format, chain O [auth E] MOL2 format, chain P [auth E] MOL2 format, chain Q [auth E] MOL2 format, chain R [auth E] MOL2 format, chain S [auth F] MOL2 format, chain T [auth F] MOL2 format, chain U [auth F] MOL2 format, chain V [auth F] MOL2 format, chain W [auth F] MOL2 format, chain X [auth F] MOL2 format, chain J [auth D] mmCIF format, chain G [auth D] mmCIF format, chain H [auth D] mmCIF format, chain I [auth D] mmCIF format, chain K [auth D] mmCIF format, chain L [auth D] mmCIF format, chain M [auth E] mmCIF format, chain N [auth E] mmCIF format, chain O [auth E] mmCIF format, chain P [auth E] mmCIF format, chain Q [auth E] mmCIF format, chain R [auth E] mmCIF format, chain S [auth F] mmCIF format, chain T [auth F] mmCIF format, chain U [auth F] mmCIF format, chain V [auth F] mmCIF format, chain W [auth F] mmCIF format, chain X [auth F] mmCIF format, chain J [auth D]	G [auth D] H [auth D] I [auth D] J [auth D] K [auth D] G [auth D], H [auth D], I [auth D], J [auth D], K [auth D], L [auth D], M [auth E], N [auth E], O [auth E], P [auth E], Q [auth E], R [auth E], S [auth F], T [auth F], U [auth F], V [auth F], W [auth F], X [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain G [auth D] Focus chain H [auth D] Focus chain I [auth D] Focus chain J [auth D] Focus chain K [auth D] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth E] Focus chain O [auth E] Focus chain P [auth E] Focus chain Q [auth E] Focus chain R [auth E] Focus chain S [auth F] Focus chain T [auth F] Focus chain U [auth F] Focus chain V [auth F] Focus chain W [auth F] Focus chain X [auth F] Interactions & Density Focus chain G [auth D] Focus chain H [auth D] Focus chain I [auth D] Focus chain J [auth D] Focus chain K [auth D] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth E] Focus chain O [auth E] Focus chain P [auth E] Focus chain Q [auth E] Focus chain R [auth E] Focus chain S [auth F] Focus chain T [auth F] Focus chain U [auth F] Focus chain V [auth F] Focus chain W [auth F] Focus chain X [auth F]