Annotations: 9DK8

TRIF TIR Filament Cryo-EM Structure

External Resource: Annotation

Domain Annotation: ECOD Classification
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth C]	WD40	e9dk8C1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth A]	WD40	e9dk8A1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D	WD40	e9dk8D1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth F]	WD40	e9dk8F1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B	WD40	e9dk8B1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A [auth E]	VWA	e9dk8E01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: VWA	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	TIR domain-containing adapter molecule 1	protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity protein binding binding kinase binding enzyme binding protein kinase binding	regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of nitric oxide metabolic process positive regulation of nitric oxide biosynthetic process regulation of metabolic process positive regulation of cellular process regulation of cellular component organization protein-containing complex organization regulation of cellular component biogenesis cellular component biogenesis cellular component organization regulation of protein-containing complex assembly cellular component assembly protein-containing complex assembly cellular component organization or biogenesis cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction response to stimulus signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling positive regulation of response to biotic stimulus immune response-regulating cell surface receptor signaling pathway pattern recognition receptor signaling pathway response to biotic stimulus immune response-activating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process cell surface toll-like receptor signaling pathway innate immune response-activating signaling pathway immune response response to other organism immune response-activating cell surface receptor signaling pathway regulation of innate immune response response to external stimulus defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response activation of immune response regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus innate immune response activating cell surface receptor signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress response to stress innate immune response response to external biotic stimulus cell surface pattern recognition receptor signaling pathway positive regulation of innate immune response cell surface receptor signaling pathway defense response defense response to symbiont immune system process toll-like receptor 4 signaling pathway cellular response to low-density lipoprotein particle stimulus cellular response to oxidised low-density lipoprotein particle stimulus response to endogenous stimulus response to chemical response to lipoprotein particle cellular response to lipoprotein particle stimulus regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of gene expression regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process macromolecule metabolic process interleukin-6 production multicellular organismal process positive regulation of interleukin-6 production regulation of interleukin-6 production regulation of cytokine production cytokine production regulation of multicellular organismal process positive regulation of multicellular organismal process positive regulation of cytokine production response to dsRNA response to nitrogen compound response to exogenous dsRNA response to lipid cellular response to lipopolysaccharide lipopolysaccharide-mediated signaling pathway cellular response to biotic stimulus response to bacterium response to oxygen-containing compound cellular response to molecule of bacterial origin response to lipopolysaccharide cellular response to oxygen-containing compound cellular response to chemical stimulus cellular response to lipid response to molecule of bacterial origin regulation of protein modification process positive regulation of protein metabolic process regulation of protein ubiquitination positive regulation of post-translational protein modification regulation of primary metabolic process positive regulation of protein modification process protein ubiquitination protein metabolic process regulation of protein modification by small protein conjugation or removal protein modification process positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination regulation of post-translational protein modification regulation of protein metabolic process primary metabolic process macromolecule modification post-translational protein modification protein modification by small protein conjugation protein modification by small protein conjugation or removal toll-like receptor signaling pathway TRIF-dependent toll-like receptor signaling pathway MyD88-independent toll-like receptor signaling pathway regulation of interferon-beta production interferon-beta production positive regulation of type I interferon production type I interferon production positive regulation of interferon-beta production regulation of type I interferon production cell population proliferation B cell activation cell activation B cell proliferation lymphocyte activation leukocyte proliferation leukocyte activation mononuclear cell proliferation lymphocyte proliferation macrophage activation involved in immune response cell activation involved in immune response myeloid cell activation involved in immune response myeloid leukocyte activation immune effector process macrophage activation leukocyte activation involved in immune response regulation of chemokine production chemokine production positive regulation of chemokine production regulation of immune effector process positive regulation of leukocyte mediated immunity regulation of myeloid leukocyte mediated immunity myeloid leukocyte mediated immunity dendritic cell cytokine production leukocyte mediated immunity regulation of cytokine production involved in immune response regulation of leukocyte mediated immunity myeloid dendritic cell cytokine production positive regulation of myeloid 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 dendritic cell cytokine production regulation of myeloid dendritic cell cytokine production positive regulation of myeloid leukocyte cytokine production involved in immune response regulation of dendritic cell cytokine production 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 myeloid dendritic cell cytokine production positive regulation of cytokine production involved in immune response cell death apoptotic signaling pathway apoptotic process programmed cell death regulation of macrophage cytokine production positive regulation of macrophage cytokine production macrophage cytokine production regulation of leukocyte activation regulation of cell activation positive regulation of lymphocyte activation positive regulation of cell activation positive regulation of leukocyte activation regulation of natural killer cell activation positive regulation of natural killer cell activation natural killer cell activation regulation of lymphocyte activation regulation of cytokine production involved in inflammatory response production of molecular mediator involved in inflammatory response cytokine production involved in inflammatory response positive regulation of cytokine production involved in inflammatory response inflammatory response positive regulation of cell population proliferation positive regulation of B cell proliferation regulation of B cell proliferation regulation of B cell activation positive regulation of mononuclear cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation positive regulation of lymphocyte proliferation positive regulation of B cell activation regulation of cell population proliferation positive regulation of leukocyte proliferation regulation of mononuclear cell proliferation 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 cytoplasmic pattern recognition receptor signaling pathway intracellular receptor signaling pathway endolysosomal toll-like receptor signaling pathway toll-like receptor 3 signaling pathway defense response to virus response to virus positive regulation of autophagy catabolic process autophagy regulation of catabolic process regulation of autophagy positive regulation of catabolic process process utilizing autophagic mechanism	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol ripoptosome protein-containing complex catalytic complex early endosome endosome membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol ripoptosome protein-containing complex catalytic complex early endosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle vesicle vacuole autophagosome endosome membrane membrane cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain	Domain
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR046946	TIR domain-containing adapter molecule 1/2	Family
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR017278	TIR domain-containing adapter molecule 1	Family
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR025735	RIP homotypic interaction motif	Binding Site
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR040886	TRIF, N-terminal	Domain
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	IPR035897	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth E], B, C [auth F], D, E [auth A], A [auth E], B, C [auth F], D, E [auth A], F [auth C]	: Q8IUC6	herpes simplex encephalitis, susceptibility to, 4 bagassosis respiratory syncytial virus infectious disease pneumoconiosis herpes simplex encephalitis, susceptibility to, 1 Herpetic meningoencephalitis ischemia reperfusion injury medulloblastoma hypothyroidism large cell medulloblastoma skin basal cell carcinoma herpes simplex encephalitis idiopathic pulmonary fibrosis vitiligo

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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.

9DK8 | pdb_00009dk8

TRIF TIR Filament Cryo-EM Structure

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation