8AVD

Cryo-EM structure for a 3:3 complex between mouse leptin and the mouse LEP-R ectodomain (local refinement)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.42 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Mechanism of receptor assembly via the pleiotropic adipokine Leptin.

Tsirigotaki, A.Dansercoer, A.Verschueren, K.H.G.Markovic, I.Pollmann, C.Hafer, M.Felix, J.Birck, C.Van Putte, W.Catteeuw, D.Tavernier, J.Fernando Bazan, J.Piehler, J.Savvides, S.N.Verstraete, K.

(2023) Nat Struct Mol Biol 30: 551-563

  • DOI: https://doi.org/10.1038/s41594-023-00941-9
  • Primary Citation of Related Structures:  
    7Z3P, 7Z3Q, 7Z3R, 8AV2, 8AVB, 8AVC, 8AVD, 8AVE, 8AVF, 8AVO, 8B7Q

  • PubMed Abstract: 

    The adipokine Leptin activates its receptor LEP-R in the hypothalamus to regulate body weight and exerts additional pleiotropic functions in immunity, fertility and cancer. However, the structure and mechanism of Leptin-mediated LEP-R assemblies has remained unclear. Intriguingly, the signaling-competent isoform of LEP-R is only lowly abundant amid several inactive short LEP-R isoforms contributing to a mechanistic conundrum. Here we show by X-ray crystallography and cryo-EM that, in contrast to long-standing paradigms, Leptin induces type I cytokine receptor assemblies featuring 3:3 stoichiometry and demonstrate such Leptin-induced trimerization of LEP-R on living cells via single-molecule microscopy. In mediating these assemblies, Leptin undergoes drastic restructuring that activates its site III for binding to the Ig domain of an adjacent LEP-R. These interactions are abolished by mutations linked to obesity. Collectively, our study provides the structural and mechanistic framework for how evolutionarily conserved Leptin:LEP-R assemblies with 3:3 stoichiometry can engage distinct LEP-R isoforms to achieve signaling.


  • Organizational Affiliation

    Unit for Structural Biology, Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Leptin
A, C, E
174Mus musculusMutation(s): 0 
Gene Names: LepOb
UniProt & NIH Common Fund Data Resources
Find proteins for P41160 (Mus musculus)
Explore P41160 
Go to UniProtKB:  P41160
IMPC:  MGI:104663
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP41160
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Leptin receptor
B, D, F
868Mus musculusMutation(s): 0 
Gene Names: LeprDbObr
UniProt & NIH Common Fund Data Resources
Find proteins for P48356 (Mus musculus)
Explore P48356 
Go to UniProtKB:  P48356
IMPC:  MGI:104993
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP48356
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.42 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19.2-4158
RECONSTRUCTIONcryoSPARCv3.3.1

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Foundation - Flanders (FWO)BelgiumG0G0619N

Revision History  (Full details and data files)

  • Version 1.0: 2023-04-05
    Type: Initial release
  • Version 1.1: 2023-04-26
    Changes: Database references
  • Version 1.2: 2024-10-23
    Changes: Data collection, Refinement description, Structure summary