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 8JZX | pdb_00008jzx

SLC15A4 inhibitor complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8JZX

This is version 2.2 of the entry. See complete history. 

Literature

A conformation-locking inhibitor of SLC15A4 with TASL proteostatic anti-inflammatory activity.

Boeszoermenyi, A., Bernaleau, L., Chen, X., Kartnig, F., Xie, M., Zhang, H., Zhang, S., Delacretaz, M., Koren, A., Hopp, A.K., Dvorak, V., Kubicek, S., Aletaha, D., Yang, M., Rebsamen, M., Heinz, L.X., Superti-Furga, G.

(2023) Nat Commun 14: 6626-6626

  • DOI: https://doi.org/10.1038/s41467-023-42070-3
  • Primary Citation Related Structures: 
    8JZX

  • PubMed Abstract: 

    Dysregulation of pathogen-recognition pathways of the innate immune system is associated with multiple autoimmune disorders. Due to the intricacies of the molecular network involved, the identification of pathway- and disease-specific therapeutics has been challenging. Using a phenotypic assay monitoring the degradation of the immune adapter TASL, we identify feeblin, a chemical entity which inhibits the nucleic acid-sensing TLR7/8 pathway activating IRF5 by disrupting the SLC15A4-TASL adapter module. A high-resolution cryo-EM structure of feeblin with SLC15A4 reveals that the inhibitor binds a lysosomal outward-open conformation incompatible with TASL binding on the cytoplasmic side, leading to degradation of TASL. This mechanism of action exploits a conformational switch and converts a target-binding event into proteostatic regulation of the effector protein TASL, interrupting the TLR7/8-IRF5 signaling pathway and preventing downstream proinflammatory responses. Considering that all components involved have been genetically associated with systemic lupus erythematosus and that feeblin blocks responses in disease-relevant human immune cells from patients, the study represents a proof-of-concept for the development of therapeutics against this disease.


  • Organizational Affiliation: 
    • CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna, Austria.

Macromolecule Content 

  • Total Structure Weight: 127.4 kDa 
  • Atom Count: 7,108 
  • Modeled Residue Count: 910 
  • Deposited Residue Count: 1,162 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
SLC15A4-ALFA tag-SLC15A4-twin strep tag fusion protein
A, B
581Homo sapiens, synthetic constructMutation(s): 0 
Gene Names: SLC15A4
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q8N697 (Homo sapiens)
Explore Q8N697 
Go to UniProtKB:  Q8N697
PHAROS:  Q8N697
GTEx:  ENSG00000139370 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8N697
Glycosylation
Glycosylation Sites: 1Go to GlyGen: Q8N697-1
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Q09
(Subject of Investigation/LOI)

Query on Q09



Download:Ideal Coordinates CCD File
E [auth A],
J [auth B]
2-(4-ethoxyphenyl)-N-[3-[(2R)-2-methylpiperidin-1-yl]propyl]quinoline-4-carboxamide
C27 H33 N3 O2
CJAGKBRBMHETMY-HXUWFJFHSA-N
CLR

Query on CLR



Download:Ideal Coordinates CCD File
D [auth A],
F [auth A],
H [auth B],
I [auth B]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
NAG

Query on NAG



Download:Ideal Coordinates CCD File
C [auth A],
G [auth B]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China21532004, 31570733

Revision History  (Full details and data files)

  • Version 1.0: 2023-09-27
    Type: Initial release
  • Version 1.1: 2023-11-15
    Changes: Database references
  • Version 2.0: 2023-12-13
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary
  • Version 2.1: 2024-11-20
    Changes: Data collection, Structure summary
  • Version 2.2: 2025-05-28
    Changes: Data collection, Database references, Source and taxonomy, Structure summary