8D7H

Cryo-EM structure of human CLCF1 in complex with CRLF1 and CNTFR alpha


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 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 insights into the assembly of gp130 family cytokine signaling complexes.

Zhou, Y.Stevis, P.E.Cao, J.Saotome, K.Wu, J.Glatman Zaretsky, A.Haxhinasto, S.Yancopoulos, G.D.Murphy, A.J.Sleeman, M.W.Olson, W.C.Franklin, M.C.

(2023) Sci Adv 9: eade4395-eade4395

  • DOI: https://doi.org/10.1126/sciadv.ade4395
  • Primary Citation of Related Structures:  
    8D7H, 8D85

  • PubMed Abstract: 

    The interleukin-6 (IL-6) family cytokines signal through gp130 receptor homodimerization or heterodimerization with a second signaling receptor and play crucial roles in various cellular processes. We determined cryo-electron microscopy structures of five signaling complexes of this family, containing full receptor ectodomains bound to their respective ligands ciliary neurotrophic factor, cardiotrophin-like cytokine factor 1 (CLCF1), leukemia inhibitory factor, IL-27, and IL-6. Our structures collectively reveal similarities and differences in the assembly of these complexes. The acute bends at both signaling receptors in all complexes bring the membrane-proximal domains to a ~30 angstrom range but with distinct distances and orientations. We also reveal how CLCF1 engages its secretion chaperone cytokine receptor-like factor 1. Our data provide valuable insights for therapeutically targeting gp130-mediated signaling.


  • Organizational Affiliation

    Regeneron Pharmaceuticals Inc., Tarrytown, NY 10591, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ciliary neurotrophic factor receptor subunit alphaA [auth C],
D [auth G]
348Homo sapiensMutation(s): 0 
Gene Names: CNTFR
UniProt & NIH Common Fund Data Resources
Find proteins for P26992 (Homo sapiens)
Explore P26992 
Go to UniProtKB:  P26992
PHAROS:  P26992
GTEx:  ENSG00000122756 
Entity Groups  
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UniProt GroupP26992
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Cardiotrophin-like cytokine factor 1B [auth D],
E [auth H]
204Homo sapiensMutation(s): 0 
Gene Names: CLCF1BSF3CLCNNT1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UBD9 (Homo sapiens)
Explore Q9UBD9 
Go to UniProtKB:  Q9UBD9
PHAROS:  Q9UBD9
GTEx:  ENSG00000175505 
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UniProt GroupQ9UBD9
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Cytokine receptor-like factor 1C [auth A],
F [auth E]
395Homo sapiensMutation(s): 0 
Gene Names: CRLF1UNQ288/PRO327
UniProt & NIH Common Fund Data Resources
Find proteins for O75462 (Homo sapiens)
Explore O75462 
Go to UniProtKB:  O75462
PHAROS:  O75462
GTEx:  ENSG00000006016 
Entity Groups  
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UniProt GroupO75462
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 4
MoleculeChains Length2D Diagram Glycosylation3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
G [auth B],
H [auth F],
I,
J,
K,
G [auth B],
H [auth F],
I,
J,
K,
L,
M,
N,
O,
P,
Q,
R,
S,
T
2N/AN-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT
GlyCosmos:  G42666HT
GlyGen:  G42666HT
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2023-03-29
    Type: Initial release