8ODZ

Cryo-EM structure of a pre-dimerized murine IL-12 complete extracellular signaling complex (Class 1).


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 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

Structures of complete extracellular receptor assemblies mediated by IL-12 and IL-23.

Bloch, Y.Felix, J.Merceron, R.Provost, M.Symakani, R.A.De Backer, R.Lambert, E.Mehdipour, A.R.Savvides, S.N.

(2024) Nat Struct Mol Biol 

  • DOI: https://doi.org/10.1038/s41594-023-01190-6
  • Primary Citation of Related Structures:  
    8C7M, 8CR5, 8CR6, 8CR8, 8ODX, 8ODZ, 8OE0, 8OE4, 8PB1, 8PPM

  • PubMed Abstract: 

    Cell-surface receptor complexes mediated by pro-inflammatory interleukin (IL)-12 and IL-23, both validated therapeutic targets, are incompletely understood due to the lack of structural insights into their complete extracellular assemblies. Furthermore, there is a paucity of structural details describing the IL-12-receptor interaction interfaces, in contrast to IL-23-receptor complexes. Here we report structures of fully assembled mouse IL-12/human IL-23-receptor complexes comprising the complete extracellular segments of the cognate receptors determined by electron cryo-microscopy. The structures reveal key commonalities but also surprisingly diverse features. Most notably, whereas IL-12 and IL-23 both utilize a conspicuously presented aromatic residue on their α-subunit as a hotspot to interact with the N-terminal Ig domain of their high-affinity receptors, only IL-12 juxtaposes receptor domains proximal to the cell membrane. Collectively, our findings will help to complete our understanding of cytokine-mediated assemblies of tall cytokine receptors and will enable a cytokine-specific interrogation of IL-12/IL-23 signaling in physiology and disease.


  • Organizational Affiliation

    VIB Center for Medical Biotechnology, Ghent, Belgium.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-12 subunit alpha231Mus musculusMutation(s): 0 
Gene Names: Il12a
UniProt & NIH Common Fund Data Resources
Find proteins for P43431 (Mus musculus)
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Go to UniProtKB:  P43431
IMPC:  MGI:96539
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UniProt GroupP43431
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-12 subunit beta313Mus musculusMutation(s): 0 
Gene Names: Il12b
UniProt & NIH Common Fund Data Resources
Find proteins for P43432 (Mus musculus)
Explore P43432 
Go to UniProtKB:  P43432
IMPC:  MGI:96540
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UniProt GroupP43432
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-12 receptor subunit beta-1,Death-associated protein kinase 1572Mus musculusMutation(s): 0 
Gene Names: Il12rb1Il12rbDAPK1DAPK
EC: 2.7.11.1
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Find proteins for P53355 (Homo sapiens)
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Go to UniProtKB:  P53355
PHAROS:  P53355
GTEx:  ENSG00000196730 
Find proteins for Q60837 (Mus musculus)
Explore Q60837 
Go to UniProtKB:  Q60837
IMPC:  MGI:104579
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UniProt GroupsQ60837P53355
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Interleukin-12 receptor subunit beta-2,Calmodulin-1769Mus musculusMutation(s): 0 
Gene Names: Il12rb2CALM1CALMCAMCAM1
UniProt & NIH Common Fund Data Resources
Find proteins for P0DP23 (Homo sapiens)
Explore P0DP23 
Go to UniProtKB:  P0DP23
PHAROS:  P0DP23
GTEx:  ENSG00000198668 
Find proteins for P97378 (Mus musculus)
Explore P97378 
Go to UniProtKB:  P97378
Entity Groups  
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UniProt GroupsP97378P0DP23
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  • Reference Sequence
Oligosaccharides

Help

Entity ID: 5
MoleculeChains Length2D Diagram Glycosylation3D Interactions
alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
E
4N-Glycosylation
Glycosylation Resources
GlyTouCan:  G81315DD
GlyCosmos:  G81315DD
GlyGen:  G81315DD
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.60 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19.2-4158
RECONSTRUCTIONcryoSPARC

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Foundation - Flanders (FWO)Belgium12S0519N
Research Foundation - Flanders (FWO)BelgiumG0B4918N

Revision History  (Full details and data files)

  • Version 1.0: 2024-02-07
    Type: Initial release