7LFH | pdb_00007lfh

Cryo-EM structure of NLRP3 double-ring cage, 6-fold (12-mer)

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	CoV_peptidase	e7lfhL1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
K	CoV_peptidase	e7lfhK1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
J	CoV_peptidase	e7lfhJ1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
I	CoV_peptidase	e7lfhI1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
H	CoV_peptidase	e7lfhH1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
G	CoV_peptidase	e7lfhG1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
F	CoV_peptidase	e7lfhF1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
E	CoV_peptidase	e7lfhE1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
D	CoV_peptidase	e7lfhD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
C	CoV_peptidase	e7lfhC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
B	CoV_peptidase	e7lfhB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)
A	CoV_peptidase	e7lfhA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: CoV_peptidase	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF05729	NACHT domain (NACHT)	NACHT domain	This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation [1]. This family is closely related to Pfam:PF00931.	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF13516	Leucine Rich repeat (LRR_6)	Leucine Rich repeat	-	Repeat
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF14484	Fish-specific NACHT associated domain (FISNA)	Fish-specific NACHT associated domain	-	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF17776	NLRC4 helical domain HD2 (NLRC4_HD2)	NLRC4 helical domain HD2	This entry represents a helical domain found in the NLRC4 protein [2] and NOD2 protein [1].	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF17779	NOD2 winged helix domain (WHD_NOD2)	NOD2 winged helix domain	This winged helix domain is found in the NOD2 protein [1]. Its molecular function is not known.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	NACHT, LRR and PYD domains-containing protein 3	cysteine-type endopeptidase activator activity endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity sequence-specific DNA binding DNA binding binding nucleic acid binding protein-macromolecule adaptor activity cysteine-type endopeptidase activator activity endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity sequence-specific DNA binding DNA binding binding nucleic acid binding protein-macromolecule adaptor activity molecular adaptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ADP binding phospholipid binding lipid binding phosphatidylinositol phosphate binding molecular sensor activity identical protein binding protein binding signaling adaptor activity molecular condensate scaffold activity transcription factor binding DNA-binding transcription factor binding phosphatidylinositol-4-phosphate binding pyrophosphatase activity ATP hydrolysis activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity ATP-dependent activity	multicellular organismal process regulation of cellular process positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process regulation of interleukin-5 production positive regulation of biosynthetic process regulation of cytokine production cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process interleukin-5 production positive regulation of cellular process regulation of biosynthetic process multicellular organismal process regulation of cellular process positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process regulation of interleukin-5 production positive regulation of biosynthetic process regulation of cytokine production cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process interleukin-5 production positive regulation of cellular process regulation of biosynthetic process regulation of biological process biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process positive regulation of cytokine production regulation of metabolic process positive regulation of interleukin-5 production regulation of defense response response to stimulus regulation of response to external stimulus defense response response to external stimulus regulation of inflammatory response positive regulation of response to stimulus positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stimulus regulation of response to stress response to stress positive regulation of defense response inflammatory response interleukin-13 production positive regulation of interleukin-13 production regulation of interleukin-13 production biological process involved in interspecies interaction between organisms immune response response to other organism defense response to symbiont response to biotic stimulus immune system process defense response to other organism innate immune response response to external biotic stimulus regulation of alpha-beta T cell activation regulation of leukocyte activation regulation of cell activation positive regulation of T cell differentiation regulation of cell development multicellular organism development type 2 immune response positive regulation of immune response T cell activation cell differentiation regulation of type 2 immune response regulation of T-helper cell differentiation alpha-beta T cell activation regulation of immune system process positive regulation of CD4-positive, alpha-beta T cell differentiation T-helper cell differentiation positive regulation of cell development immune effector process regulation of leukocyte cell-cell adhesion positive regulation of alpha-beta T cell differentiation regulation of developmental process cell development positive regulation of leukocyte cell-cell adhesion CD4-positive, alpha-beta T cell differentiation positive regulation of T-helper cell differentiation positive regulation of cell-cell adhesion regulation of T cell differentiation positive regulation of lymphocyte activation alpha-beta T cell differentiation T cell activation involved in immune response positive regulation of cell differentiation leukocyte activation involved in immune response positive regulation of immune effector process regulation of T-helper 2 cell differentiation regulation of cell-cell adhesion hemopoiesis regulation of cell adhesion cell activation positive regulation of T-helper 2 cell differentiation regulation of CD4-positive, alpha-beta T cell activation regulation of lymphocyte activation regulation of immune effector process regulation of leukocyte differentiation mononuclear cell differentiation regulation of cell differentiation lymphocyte differentiation cell activation involved in immune response positive regulation of developmental process positive regulation of cell activation anatomical structure development positive regulation of leukocyte activation T cell differentiation positive regulation of immune system process developmental process positive regulation of T cell activation positive regulation of alpha-beta T cell activation regulation of immune response leukocyte differentiation cellular developmental process regulation of CD4-positive, alpha-beta T cell differentiation regulation of alpha-beta T cell differentiation lymphocyte activation leukocyte cell-cell adhesion leukocyte activation positive regulation of CD4-positive, alpha-beta T cell activation cell adhesion cell-cell adhesion alpha-beta T cell activation involved in immune response positive regulation of hemopoiesis CD4-positive, alpha-beta T cell activation T-helper 2 cell differentiation lymphocyte activation involved in immune response regulation of lymphocyte differentiation regulation of multicellular organismal development positive regulation of cell adhesion regulation of T cell activation T cell differentiation involved in immune response positive regulation of type 2 immune response regulation of hemopoiesis positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation interleukin-1 production regulation of interleukin-1 beta production positive regulation of interleukin-1 beta production positive regulation of interleukin-1 production regulation of interleukin-1 production interleukin-1 beta production cellular response to stimulus response to osmotic stress signaling cellular response to chemical stress cellular response to osmotic stress intracellular signal transduction cellular response to environmental stimulus cell communication cellular response to chemical stimulus osmosensory signaling pathway cellular response to stress response to chemical response to abiotic stimulus cellular response to abiotic stimulus signal transduction positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway cellular component biogenesis immune response-activating signaling pathway cellular component assembly inflammasome-mediated signaling pathway canonical inflammasome complex assembly innate immune response-activating signaling pathway regulation of innate immune response NLRP3 inflammasome complex assembly activation of innate immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of response to biotic stimulus intracellular receptor signaling pathway cellular component organization immune response-regulating signaling pathway protein-containing complex assembly cellular component organization or biogenesis positive regulation of innate immune response protein-containing complex organization establishment of protein localization transport secretion establishment of protein localization to extracellular region export from cell protein secretion establishment of localization protein localization to extracellular region localization secretion by cell protein transport macromolecule localization intracellular protein localization defense response to virus response to virus positive regulation of DNA-templated transcription RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity T cell mediated immunity positive regulation of leukocyte mediated immunity T-helper 2 cell cytokine production T cell cytokine production regulation of T-helper 2 cell cytokine production leukocyte mediated immunity positive regulation of adaptive immune response positive regulation of T cell cytokine production regulation of T cell mediated immunity regulation of cytokine production involved in immune response positive regulation of T-helper 2 cell cytokine production regulation of adaptive immune response regulation of leukocyte mediated immunity positive regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains positive regulation of lymphocyte mediated immunity regulation of T cell cytokine production CD4-positive, alpha-beta T cell cytokine production regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains cytokine production involved in immune response production of molecular mediator of immune response adaptive immune response regulation of lymphocyte mediated immunity positive regulation of T cell mediated immunity positive regulation of cytokine production involved in immune response cellular response to nitrogen compound cellular response to peptidoglycan response to oxygen-containing compound response to nitrogen compound cellular response to molecule of bacterial origin cellular response to oxygen-containing compound cellular response to biotic stimulus response to bacterium response to molecule of bacterial origin response to peptidoglycan acute inflammatory response negative regulation of inflammatory response negative regulation of response to stimulus negative regulation of biological process negative regulation of response to external stimulus negative regulation of defense response negative regulation of interleukin-1 beta production negative regulation of interleukin-1 production negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of metabolic process negative regulation of cytokine production negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of multicellular organismal process response to lipid cellular response to lipopolysaccharide response to lipopolysaccharide cellular response to lipid response to alcohol response to ethanol positive regulation of cell communication positive regulation of signal transduction regulation of NLRP3 inflammasome complex assembly positive regulation of NLRP3 inflammasome complex assembly regulation of signal transduction positive regulation of pattern recognition receptor signaling pathway positive regulation of intracellular signal transduction positive regulation of inflammasome-mediated signaling pathway regulation of inflammasome-mediated signaling pathway regulation of pattern recognition receptor signaling pathway regulation of cellular component organization positive regulation of cellular component organization regulation of cytoplasmic pattern recognition receptor signaling pathway regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly regulation of intracellular signal transduction regulation of signaling positive regulation of cellular component biogenesis regulation of cellular component biogenesis regulation of cell communication positive regulation of signaling negative regulation of acute inflammatory response regulation of acute inflammatory response regulation of non-canonical NF-kappaB signal transduction intracellular signaling cassette non-canonical NF-kappaB signal transduction positive regulation of non-canonical NF-kappaB signal transduction protein metabolic process protein maturation cell surface receptor signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to interleukin-1 interleukin-1-mediated signaling pathway cellular response to cytokine stimulus response to interleukin-1 positive regulation of interleukin-18 production regulation of interleukin-18 production interleukin-18 production negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of cell communication negative regulation of non-canonical NF-kappaB signal transduction negative regulation of signal transduction protein complex oligomerization protein homooligomerization regulation of interleukin-4 production positive regulation of interleukin-4 production interleukin-4 production pyroptotic inflammatory response cellular response to interleukin-18 response to interleukin-18 interleukin-18-mediated signaling pathway cellular response to virus defense response to Gram-positive bacterium defense response to bacterium T-helper 17 cell differentiation positive regulation of T-helper 17 cell differentiation regulation of T-helper 17 cell differentiation positive regulation of T-helper 17 type immune response regulation of T-helper 17 type immune response T-helper 17 type immune response detection of stimulus detection of biotic stimulus	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol intracellular organelle microtubule organizing center cytoskeleton organelle membraneless organelle intracellular membraneless organelle interphase microtubule organizing center microtubule cytoskeleton membrane-bounded organelle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol intracellular organelle microtubule organizing center cytoskeleton organelle membraneless organelle intracellular membraneless organelle interphase microtubule organizing center microtubule cytoskeleton membrane-bounded organelle Golgi membrane Golgi apparatus intracellular membrane-bounded organelle endomembrane system bounding membrane of organelle organelle membrane canonical inflammasome complex protein-containing complex mitochondrion extracellular region NLRP3 inflammasome complex nucleus endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR001611	Leucine-rich repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR004020	DAPIN domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR029495	NACHT-associated domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR007111	NACHT nucleoside triphosphatase	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR011029	Death-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR041267	NACHT, LRR and PYD domains-containing protein, helical domain HD2	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR041075	NOD1/2, winged helix domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR032675	Leucine-rich repeat domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR050637	NLRP family, innate immunity and inflammation regulators	Family

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.