3J63 | pdb_00003j63

Unified assembly mechanism of ASC-dependent inflammasomes

• PDB DOI: https://doi.org/10.2210/pdb3J63/pdb
• EM Map EMD-5830: EMDB EMDataResource

• Classification: APOPTOSIS
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2013-12-05 Released: 2014-03-26 
• Deposition Author(s): Lu, A., Magupalli, V.G., Ruan, J., Yin, Q., Atianand, M.K., Vos, M., Schroder, G.F., Fitzgerald, K.A., Wu, H., Egelman, E.H.

---

Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Literature

Unified Polymerization Mechanism for the Assembly of ASC-Dependent Inflammasomes.

Lu, A., Magupalli, V.G., Ruan, J., Yin, Q., Atianand, M.K., Vos, M.R., Schroder, G.F., Fitzgerald, K.A., Wu, H., Egelman, E.H.

(2014) Cell 156: 1193-1206

• PubMed: 24630722 
• DOI: https://doi.org/10.1016/j.cell.2014.02.008
• Primary Citation Related Structures: 
  3J63


• PubMed Abstract: 
  

  Inflammasomes elicit host defense inside cells by activating caspase-1 for cytokine maturation and cell death. AIM2 and NLRP3 are representative sensor proteins in two major families of inflammasomes. The adaptor protein ASC bridges the sensor proteins and caspase-1 to form ternary inflammasome complexes, achieved through pyrin domain (PYD) interactions between sensors and ASC and through caspase activation and recruitment domain (CARD) interactions between ASC and caspase-1. We found that PYD and CARD both form filaments. Activated AIM2 and NLRP3 nucleate PYD filaments of ASC, which, in turn, cluster the CARD of ASC. ASC thus nucleates CARD filaments of caspase-1, leading to proximity-induced activation. Endogenous NLRP3 inflammasome is also filamentous. The cryoelectron microscopy structure of ASC(PYD) filament at near-atomic resolution provides a template for homo- and hetero-PYD/PYD associations, as confirmed by structure-guided mutagenesis. We propose that ASC-dependent inflammasomes in both families share a unified assembly mechanism that involves two successive steps of nucleation-induced polymerization. PAPERFLICK:

---

Organizational Affiliation: 
• Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA; Program in Cellular and Molecular Medicine, Boston Children's Hospital, Boston, MA 02115, USA.
Division of Infectious Diseases and Immunology, Department of Medicine, University of Massachusetts Medical School, Worcester, MA 01655, USA.
FEI Company, Nanoport Europe, 5651 GG Eindhoven, the Netherlands.
Institute of Complex Systems, Forschungszentrum Jülich, 52425 Jülich, Germany; Physics Department, Heinrich-Heine Universität Düsseldorf, 40225 Düsseldorf, Germany.
Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA; Program in Cellular and Molecular Medicine, Boston Children's Hospital, Boston, MA 02115, USA. Electronic address: [e-mail].
Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA 22908, USA.

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 15-mer - A15 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 151.37 kDa 
• Atom Count: 10,590 
• Modeled Residue Count: 1,365 
• Deposited Residue Count: 1,365 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Apoptosis-associated speck-like protein containing a CARD	A, B, C, D, E, F, G, H, I, J, K, L, M, N, O	91	Homo sapiens	Mutation(s): 0  Gene Names: PYCARD, ASC, CARD5, TMS1
UniProt & NIH Common Fund Data Resources
Find proteins for Q9ULZ3 (Homo sapiens) Explore Q9ULZ3  Go to UniProtKB:  Q9ULZ3
PHAROS:  Q9ULZ3 GTEx:  ENSG00000103490

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.80 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	IHRSR
RECONSTRUCTION	SPIDER

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-03-26 
Deposition Author(s): Lu, A., Magupalli, V.G., Ruan, J., Yin, Q., Atianand, M.K., Vos, M., Schroder, G.F., Fitzgerald, K.A., Wu, H., Egelman, E.H.

Revision History  

• Version 1.0: 2014-03-26
  Type: Initial release
  
• Version 1.1: 2018-07-18
  Changes: Author supporting evidence, Data collection
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references