5H8O

Crystal structure of an ASC-binding nanobody in complex with the CARD domain of ASC

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
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)
A	PF07686	e5h8oA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
B	PF00619	e5h8oB1	A: alpha arrays	X: DEATH domain	H: DEATH domain (From Topology)	T: DEATH domain	F: PF00619	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
A	Heavy Chain	IGHV1	-	apoptosis-associated speck-like protein containing a card	SAbDab (2024-07-12)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF00619	Caspase recruitment domain (CARD)	Caspase recruitment domain	Motif contained in proteins involved in apoptotic signaling. Predicted to possess a DEATH (Pfam:PF00531) domain-like fold .	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	VHH nanobody	-	-	-
B	Apoptosis-associated speck-like protein containing a CARD	cytoskeletal protein binding protein binding binding tropomyosin binding enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity cysteine-type endopeptidase activator activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process peptidase activator activity peptidase activator activity involved in apoptotic process Pyrin domain binding cytoskeletal protein binding protein binding binding tropomyosin binding enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity cysteine-type endopeptidase activator activity involved in apoptotic process molecular function regulator activity cysteine-type endopeptidase regulator activity involved in apoptotic process peptidase activator activity peptidase activator activity involved in apoptotic process Pyrin domain binding protein domain specific binding protein dimerization activity identical protein binding enzyme binding protease binding BMP receptor binding receptor serine/threonine kinase binding signaling receptor binding transmembrane receptor protein serine/threonine kinase binding transmembrane transporter binding interleukin-6 receptor binding cytokine receptor binding growth factor receptor binding protein homodimerization activity myosin I binding myosin binding	regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity positive regulation of biological process regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity positive regulation of macromolecule metabolic process protein metabolic process regulation of cysteine-type endopeptidase activity regulation of biological process regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity positive regulation of biological process regulation of primary metabolic process positive regulation of molecular function positive regulation of metabolic process regulation of proteolysis proteolysis regulation of endopeptidase activity positive regulation of macromolecule metabolic process protein metabolic process regulation of cysteine-type endopeptidase activity regulation of biological process organonitrogen compound metabolic process regulation of protein metabolic process regulation of peptidase activity biological regulation positive regulation of catalytic activity primary metabolic process regulation of macromolecule metabolic process regulation of molecular function positive regulation of hydrolase activity positive regulation of cysteine-type endopeptidase activity regulation of hydrolase activity positive regulation of endopeptidase activity positive regulation of proteolysis metabolic process macromolecule metabolic process regulation of metabolic process 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 immune response regulation of adaptive immune response adaptive immune response positive regulation of immune response immune system process regulation of immune response regulation of immune system process positive regulation of adaptive immune response positive regulation of immune system process cellular response to stimulus regulation of cellular process signaling signal transduction by p53 class mediator cell death intracellular signal transduction cell communication apoptotic signaling pathway intrinsic apoptotic signaling pathway by p53 class mediator cellular process signal transduction apoptotic process intrinsic apoptotic signaling pathway programmed cell death positive regulation of organelle organization regulation of cellular component organization positive regulation of cellular component organization apoptotic mitochondrial changes regulation of release of cytochrome c from mitochondria cellular component organization positive regulation of release of cytochrome c from mitochondria cellular component organization or biogenesis positive regulation of cellular process mitochondrion organization regulation of organelle organization release of cytochrome c from mitochondria organelle organization regulation of mitochondrion organization regulation of signal transduction regulation of programmed cell death regulation of intrinsic apoptotic signaling pathway regulation of intracellular signal transduction regulation of signaling regulation of apoptotic process regulation of cell communication regulation of apoptotic signaling pathway positive regulation of DNA-binding transcription factor activity cellular biosynthetic process RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process regulation of DNA-binding transcription factor activity regulation of macromolecule biosynthetic process regulation of DNA-templated transcription pyroptotic inflammatory response positive regulation of programmed cell death positive regulation of apoptotic process biological process involved in interspecies interaction between organisms response to other organism defense response to symbiont response to biotic stimulus defense response to other organism innate immune response response to external biotic stimulus regulation of localization import into cell transport vesicle-mediated transport localization positive regulation of endocytosis phagocytosis regulation of endocytosis regulation of transport regulation of phagocytosis regulation of vesicle-mediated transport establishment of localization positive regulation of phagocytosis positive regulation of transport endocytosis multicellular organismal process interleukin-1 production positive regulation of cellular metabolic process regulation of interleukin-1 beta production positive regulation of macromolecule biosynthetic process positive regulation of interleukin-1 beta production positive regulation of biosynthetic process regulation of cytokine production cytokine production regulation of multicellular organismal process positive regulation of interleukin-1 production regulation of interleukin-1 production interleukin-1 beta production positive regulation of gene expression positive regulation of multicellular organismal process positive regulation of cytokine production positive regulation of cellular biosynthetic process positive regulation of interleukin-8 production interleukin-8 production regulation of interleukin-8 production positive regulation of cell communication positive regulation of signal transduction positive regulation of JNK cascade JNK cascade intracellular signaling cassette positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade positive regulation of signaling regulation of protein stability regulation of biological quality response to osmotic stress cellular response to chemical stress cellular response to osmotic stress cellular response to environmental stimulus cellular response to chemical stimulus osmosensory signaling pathway cellular response to stress response to chemical response to abiotic stimulus cellular response to abiotic stimulus regulation of chemokine production chemokine production positive regulation of chemokine production positive regulation of NF-kappaB transcription factor activity 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 immune response-regulating signaling pathway protein-containing complex assembly positive regulation of innate immune response protein-containing complex organization interleukin-10 production regulation of interleukin-10 production positive regulation of interleukin-10 production positive regulation of locomotion regulation of cell motility regulation of lymphocyte migration positive regulation of cell migration positive regulation of cell motility regulation of cell migration positive regulation of mononuclear cell migration cell migration cell motility regulation of mononuclear cell migration locomotion positive regulation of lymphocyte migration regulation of leukocyte migration positive regulation of T cell migration lymphocyte migration positive regulation of leukocyte migration leukocyte migration regulation of locomotion regulation of T cell migration mononuclear cell migration T cell migration macropinocytosis pinocytosis cell surface receptor signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway cellular response to cytokine stimulus response to tumor necrosis factor regulation of defense response to virus defense response to virus positive regulation of defense response to virus by host regulation of defense response to virus by host response to virus defense response to Gram-negative bacterium defense response to bacterium response to bacterium regulation of immune effector process regulation of cytokine production involved in immune response immune effector process regulation of macrophage cytokine production positive regulation of production of molecular mediator of immune response regulation of production of molecular mediator of immune response positive regulation of macrophage cytokine production positive regulation of myeloid leukocyte cytokine production involved in immune response positive regulation of immune effector process myeloid leukocyte cytokine production cytokine production involved in immune response production of molecular mediator of immune response positive regulation of cytokine production involved in immune response macrophage cytokine production regulation of tumor necrosis factor-mediated signaling pathway regulation of cytokine-mediated signaling pathway regulation of response to cytokine stimulus cellular response to interleukin-1 response to interleukin-1 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process regulation of cysteine-type endopeptidase activity involved in apoptotic process activation of cysteine-type endopeptidase activity involved in apoptotic process positive regulation of ERK1 and ERK2 cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade interleukin-6 production positive regulation of interleukin-6 production regulation of interleukin-6 production negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process negative regulation of canonical NF-kappaB signal transduction negative regulation of cell communication negative regulation of cellular process negative regulation of response to stimulus negative regulation of signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction response to lipid cellular response to lipopolysaccharide response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to biotic stimulus cellular response to lipid response to molecule of bacterial origin extrinsic apoptotic signaling pathway positive regulation of apoptotic signaling pathway positive regulation of extrinsic apoptotic signaling pathway regulation of extrinsic apoptotic signaling pathway icosanoid metabolic process small molecule biosynthetic process oxoacid metabolic process carboxylic acid metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process icosanoid biosynthetic process small molecule metabolic process negative regulation of cellular metabolic process negative regulation of type I interferon production regulation of interferon-beta production interferon-beta production negative regulation of macromolecule metabolic process type I interferon production negative regulation of metabolic process negative regulation of cytokine production negative regulation of cellular biosynthetic process negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of interferon-beta production negative regulation of multicellular organismal process regulation of type I interferon production negative regulation of DNA-binding transcription factor activity negative regulation of NF-kappaB transcription factor activity negative regulation of molecular function positive regulation of cell population proliferation regulation of leukocyte activation regulation of cell activation positive regulation of cell activation T cell activation lymphocyte proliferation positive regulation of leukocyte activation regulation of leukocyte proliferation cell population proliferation positive regulation of T cell activation positive regulation of lymphocyte proliferation positive regulation of T cell proliferation positive regulation of activated T cell proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation regulation of activated T cell proliferation positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte proliferation leukocyte cell-cell adhesion leukocyte activation activated T cell proliferation positive regulation of cell-cell adhesion positive regulation of lymphocyte activation cell adhesion cell-cell adhesion positive regulation of mononuclear cell proliferation regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation regulation of T cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation regulation of cytoskeleton organization regulation of actin filament-based process regulation of cellular component size regulation of protein-containing complex assembly positive regulation of protein-containing complex assembly positive regulation of protein polymerization actin filament-based process regulation of actin filament polymerization protein polymerization actin polymerization or depolymerization regulation of actin filament organization actin filament polymerization actin cytoskeleton organization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization actin filament organization regulation of actin polymerization or depolymerization positive regulation of supramolecular fiber organization regulation of cellular component biogenesis regulation of protein polymerization regulation of actin filament length regulation of actin cytoskeleton organization regulation of supramolecular fiber organization supramolecular fiber organization positive regulation of actin filament polymerization cytoskeleton organization regulation of anatomical structure size negative regulation of catalytic activity regulation of transferase activity negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification regulation of protein serine/threonine kinase activity regulation of phosphorus metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of phosphate metabolic process negative regulation of protein serine/threonine kinase activity negative regulation of protein kinase activity regulation of protein kinase activity negative regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of phosphorylation positive regulation of antigen processing and presentation of peptide antigen positive regulation of antigen processing and presentation of peptide antigen via MHC class II positive regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II positive regulation of antigen processing and presentation antigen processing and presentation regulation of antigen processing and presentation antigen processing and presentation of peptide or polysaccharide antigen via MHC class II regulation of antigen processing and presentation of peptide or polysaccharide antigen via MHC class II regulation of antigen processing and presentation of peptide antigen regulation of antigen processing and presentation of peptide antigen via MHC class II antigen processing and presentation of peptide antigen via MHC class II antigen processing and presentation of peptide antigen regulation of non-canonical NF-kappaB signal transduction non-canonical NF-kappaB signal transduction positive regulation of non-canonical NF-kappaB signal transduction myeloid dendritic cell activation myeloid leukocyte activation intrinsic apoptotic signaling pathway in response to DNA damage by p53 class mediator DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage catabolic process autophagy regulation of catabolic process regulation of autophagy cellular catabolic process regulation of cellular catabolic process process utilizing autophagic mechanism regulation of tumor necrosis factor production positive regulation of tumor necrosis factor superfamily cytokine production tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production tumor necrosis factor production regulation of tumor necrosis factor superfamily cytokine production protein complex oligomerization protein homooligomerization myeloid dendritic cell activation involved in immune response cell activation involved in immune response myeloid cell activation involved in immune response leukocyte activation involved in immune response regulation of type II interferon production type II interferon production positive regulation of type II interferon production defense response to Gram-positive bacterium regulation of cytokine production involved in inflammatory response negative regulation of cytokine production involved in inflammatory response production of molecular mediator involved in inflammatory response cytokine production involved in inflammatory response	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol canonical inflammasome complex protein-containing complex AIM2 inflammasome complex NLRP6 inflammasome complex membrane-bounded organelle Golgi membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular anatomical structure cytoplasm cellular anatomical entity cytosol canonical inflammasome complex protein-containing complex AIM2 inflammasome complex NLRP6 inflammasome complex membrane-bounded organelle Golgi membrane Golgi apparatus membrane intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle organelle organelle membrane somatodendritic compartment cell body neuronal cell body polymeric cytoskeletal fiber cytoskeleton intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton non-membrane-bounded organelle mitochondrion nucleus membrane-enclosed lumen nucleolus intracellular organelle lumen organelle lumen nuclear lumen lytic vacuole intracellular vesicle cytoplasmic vesicle lumen vacuolar lumen cytoplasmic vesicle vesicle lysosome vesicle lumen azurophil granule vacuole secretory granule lumen azurophil granule lumen secretory granule primary lysosome secretory vesicle nucleoplasm extracellular region catalytic complex IkappaB kinase complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups serine/threonine protein kinase complex NLRP3 inflammasome complex NLRP1 inflammasome complex endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR004020	DAPIN domain	Domain
B	IPR011029	Death-like domain superfamily	Homologous Superfamily
B	IPR033516	CARD8/ASC/NALP1, CARD domain	Domain
B	IPR001315	CARD domain	Domain

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 R01GM133198.