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 10ND | pdb_000010nd

Cryo-EM structure of human IL-10RA in complex with VHH E07


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 10ND

This is version 1.1 of the entry. See complete history. 

Literature

Engineered TYK2 dependence enables myeloid-selective IL-10 receptor agonism.

Canaria, D.A., Nguyen, T.T.T., Huang, H., Xu, H., Yue, L., Fu, Y., Truong, H., Patel, K., Xing, W., Ravichandar, J.D., Xing, C., Martin, A.L., Delidakis, G., Wong, S., Pae, A., Yu, Y., Macdonald, R., Huang, Z., Main, M.C., Rodriguez, A., Lin, X., Mouchess, M.L., Hung, M., McGlinchey, E.M., Chen, L., Schirle Oakdale, N., Carr, B., Koleske, M.L., Lee, C.V., Chen, C., Yi, T.

(2026) Nature 

  • DOI: https://doi.org/10.1038/s41586-026-11176-1
  • Primary Citation Related Structures: 
    10ND, 10NE

  • PubMed Abstract: 

    Interleukin-10 (IL-10) is a central anti-inflammatory cytokine that suppresses immune responses in myeloid cells but can also activate T cells, limiting its therapeutic use in chronic inflammatory diseases owing to narrow efficacy windows and dose-limiting toxicities 1-5 . Here we show that myeloid and T cells differ in their dependence on JAK-family kinase pairing for IL-10 signalling and function. We took advantage of this differential kinase dependence to engineer a tetravalent nanobody-based myeloid-selective IL-10 receptor agonist (msIL-10R agonist) that fully recapitulates IL-10's potent suppression of monocytes, macrophages and dendritic cells while avoiding stimulation of T cells. Cryo-electron microscopy structural analysis reveals a distinct receptor cross-linking geometry of the msIL-10R agonist compared with native IL-10 family cytokines. This tetravalent architecture renders signalling strictly TYK2-dependent and highly sensitive to IL-10Rα and IL-10Rβ receptor abundance, thereby conferring selective activity in myeloid cells. This msIL-10R agonist reduces inflammation in humanized mouse models of lipopolysaccharide challenge, delayed-type hypersensitivity and colitis. A humanized version exhibits IgG-like pharmacokinetics, sustained receptor occupancy and durable myeloid suppression up to 30 days without T cell activation or haematological toxicities in non-human primates. These findings establish a geometry-based strategy for achieving cell-type-selective cytokine signalling and identify the msIL-10R agonist as a therapeutic candidate for myeloid-driven inflammatory diseases, including inflammatory bowel diseases.


  • Organizational Affiliation: 
    • Postdoctoral Program, Gilead Sciences, Foster City, CA, USA.

Macromolecule Content 

  • Total Structure Weight: 40.52 kDa 
  • Atom Count: 2,607 
  • Modeled Residue Count: 327 
  • Deposited Residue Count: 359 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Interleukin-10 receptor subunit alpha227Homo sapiensMutation(s): 0 
Gene Names: IL10RA, IL10R
UniProt & NIH Common Fund Data Resources
Find proteins for Q13651 (Homo sapiens)
Explore Q13651 
Go to UniProtKB:  Q13651
PHAROS:  Q13651
GTEx:  ENSG00000110324 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13651
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
VHH antibody E07132Lama glamaMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.2_5419
RECONSTRUCTIONcryoSPARC

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data

  • Released Date: 2026-10-21 
  • Deposition Author(s): Xu, H.

Funding OrganizationLocationGrant Number
Other private--

Revision History  (Full details and data files)

  • Version 1.0: 2026-10-21
    Type: Initial release
  • Version 1.1: 2026-10-28
    Changes: Data collection, Database references