ALPHASUITEATLASTM

PDB 9MGY

Cryo-EM structure of Human NLRP3 complex with compound 1

ELECTRON MICROSCOPY · 2.9 Å

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Protein descriptions

Descriptions refer to the mapped proteins, not necessarily the full deposited construct or assembly.

Q96P20 · Chains A

NACHT, LRR and PYD domains-containing protein 3

Homo sapiens

Sensor component of the NLRP3 inflammasome, which mediates inflammasome activation in response to defects in membrane integrity, leading to secretion of inflammatory cytokines IL1B and IL18 and pyroptosis [1–20]. In response to pathogens and other damage-associated signals that affect the integrity of membranes, initiates the formation of the inflammasome polymeric complex composed of NLRP3, CASP1 and PYCARD/ASC [1, 2, 21, 8, 13, 14, 15, 16, 22, 18]. Recruitment of pro-caspase-1 (proCASP1) to the NLRP3 inflammasome promotes caspase-1 (CASP1) activation, which subsequently cleaves and activates inflammatory cytokines IL1B and IL18 and gasdermin-D (GSDMD), promoting cytokine secretion and pyroptosis [4, 8, 13, 14, 15, 16].

Activation of NLRP3 inflammasome is also required for HMGB1 secretion; stimulating inflammatory responses [23]. Involved in the homeostatic wound healing response to tissue injury, a multistep cascade that guides neutrophil migration to necrotic sites while avoiding collateral damage of healthy tissues. ATP released from necrotic cells triggers activation of NLRP3 inflammasome through P2RX7 signaling leading to neutrophil adhesion to the vascular endothelium close to the injury site (By similarity).

Under resting conditions, ADP-bound NLRP3 is autoinhibited [24]. NLRP3 activation stimuli include extracellular ATP, nigericin, reactive oxygen species, crystals of monosodium urate or cholesterol, amyloid-beta fibers, environmental or industrial particles and nanoparticles, such as asbestos, silica, aluminum salts, cytosolic dsRNA, etc [1, 2, 3, 25, 26]. Almost all stimuli trigger intracellular K(+) efflux (By similarity).

These stimuli lead to membrane perturbation and activation of NLRP3 (By similarity). Upon activation, NLRP3 is transported to microtubule organizing center (MTOC), where it is unlocked by NEK7, leading to its relocalization to dispersed trans-Golgi network (dTGN) vesicle membranes and formation of an active inflammasome complex [18, 27]. Associates with dTGN vesicle membranes by binding to phosphatidylinositol 4-phosphate (PtdIns4P) [9, 28].

Shows ATPase activity [29] Independently of inflammasome activation, regulates the differentiation of T helper 2 (Th2) cells and has a role in Th2 cell-dependent asthma and tumor growth (By similarity). During Th2 differentiation, required for optimal IRF4 binding to IL4 promoter and for IRF4-dependent IL4 transcription (By similarity). Binds to the consensus DNA sequence 5'-GRRGGNRGAG-3' (By similarity).

May also participate in the transcription of IL5, IL13, GATA3, CCR3, CCR4 and MAF (By similarity)

UniProt · Q96P20 · Snapshot 10/11/2026

Supporting publications · 29
  1. PubMed 16407889
  2. PubMed 18403674
  3. PubMed 18604214
  4. PubMed 23582325
  5. PubMed 25686105
  6. PubMed 27929086
  7. PubMed 28656979
  8. PubMed 28847925
  9. PubMed 30487600
  10. PubMed 30612879
  11. PubMed 31086327
  12. PubMed 31086329
  13. PubMed 31189953
  14. PubMed 33231615
  15. PubMed 34133077
  16. PubMed 34341353
  17. PubMed 34512673
  18. PubMed 36442502
  19. PubMed 40250624
  20. PubMed 40450990
  21. PubMed 27432880
  22. PubMed 36142182
  23. PubMed 22801494
  24. PubMed 35114687
  25. PubMed 19414800
  26. PubMed 23871209
  27. PubMed 39173637
  28. PubMed 34554188
  29. PubMed 17483456

Components and protein mappings

Mappings below identify source-linked proteins. They do not establish residue-level annotation coverage or direct binding.

  • NACHT, LRR and PYD domains-containing protein 3

    PROTEIN · Chains A

    Homo sapiens

    Q96P20

  • ADENOSINE-5'-TRIPHOSPHATE

    LIGAND · Chains B

    No UniProt mapping provided

  • (2M)-2-(6-{[(3R)-1-methylpiperidin-3-yl]amino}pyridazin-3-yl)-5-(trifluoromethyl)phenol

    LIGAND · Chains C

    No UniProt mapping provided

Protein annotations are displayed in the viewer only where residue mappings are verified. Domain annotations do not apply to DNA or RNA.

Biological assemblies

  • Assembly 1

    author and software defined assembly

    Component membership checked · Chains A, B, C

    Open assembly 1 →

Primary publication

Discovery of Potent and Brain-Penetrant Bicyclic NLRP3 Inhibitors with Peripheral and Central In Vivo Activity.

Paper date: 11/02/2025

Sources and attribution

Snapshot updated 09/11/2026. Source descriptions are attributed below; Atlas combines and displays their annotations.

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