8CI2

human alpha7 nicotinic receptor in complex with the C4 nanobody under sub-saturating conditions


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

An original potentiating mechanism revealed by the cryo-EM structures of the human alpha 7 nicotinic receptor in complex with nanobodies.

Prevost, M.S.Barilone, N.Dejean de la Batie, G.Pons, S.Ayme, G.England, P.Gielen, M.Bontems, F.Pehau-Arnaudet, G.Maskos, U.Lafaye, P.Corringer, P.J.

(2023) Nat Commun 14: 5964-5964

  • DOI: https://doi.org/10.1038/s41467-023-41734-4
  • Primary Citation of Related Structures:  
    8C9X, 8CAU, 8CE4, 8CI1, 8CI2

  • PubMed Abstract: 

    The human α7 nicotinic receptor is a pentameric channel mediating cellular and neuronal communication. It has attracted considerable interest in designing ligands for the treatment of neurological and psychiatric disorders. To develop a novel class of α7 ligands, we recently generated two nanobodies named E3 and C4, acting as positive allosteric modulator and silent allosteric ligand, respectively. Here, we solved the cryo-electron microscopy structures of the nanobody-receptor complexes. E3 and C4 bind to a common epitope involving two subunits at the apex of the receptor. They form by themselves a symmetric pentameric assembly that extends the extracellular domain. Unlike C4, the binding of E3 drives an agonist-bound conformation of the extracellular domain in the absence of an orthosteric agonist, and mutational analysis shows a key contribution of an N-linked sugar moiety in mediating E3 potentiation. The nanobody E3, by remotely controlling the global allosteric conformation of the receptor, implements an original mechanism of regulation that opens new avenues for drug design.


  • Organizational Affiliation

    Institut Pasteur, Université Paris Cité, CNRS UMR 3571, Channel-Receptors Unit, Paris, France. marie.prevost@pasteur.fr.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Neuronal acetylcholine receptor subunit alpha-7
A, B, C, D, E
388Homo sapiensMutation(s): 0 
Gene Names: CHRNA7NACHRA7
UniProt & NIH Common Fund Data Resources
Find proteins for P36544 (Homo sapiens)
Explore P36544 
Go to UniProtKB:  P36544
PHAROS:  P36544
GTEx:  ENSG00000175344 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP36544
Glycosylation
Glycosylation Sites: 2Go to GlyGen: P36544-1
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Nanobody C4F,
G,
H [auth I]
147Vicugna pacosMutation(s): 0 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
Expand
  • Reference Sequence
Oligosaccharides

Help

Entity ID: 3
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranoseI [auth P],
J [auth Q],
K [auth R],
L [auth S],
M [auth T]
2N/A
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
N [auth A]
O [auth A]
P [auth B]
Q [auth B]
R [auth C]
N [auth A],
O [auth A],
P [auth B],
Q [auth B],
R [auth C],
S [auth C],
T [auth D],
U [auth D],
V [auth E],
W [auth E]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union788974
Pasteur InstituteFrance--
Centre National de la Recherche Scientifique (CNRS)France--
iNEXT-DiscoveryEuropean Union--
Agence Nationale de la Recherche (ANR)FranceANR-21-CE37-0026

Revision History  (Full details and data files)

  • Version 1.0: 2023-10-11
    Type: Initial release
  • Version 1.1: 2024-11-06
    Changes: Data collection, Structure summary