Annotations: 8S78

MicroED Structure of TLR2 TIR domain-induced MyD88 TIR domain higher-order assembly

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
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)
A	Rap1-DNA-bind	e8s78A1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: Rap1-DNA-bind	ECOD (v295)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13676	TIR domain (TIR_2)	TIR domain	This is a family of Toll-like receptors.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Myeloid differentiation primary response protein MyD88	protein binding binding signaling receptor binding Toll-like receptor binding catalytic activity, acting on a protein catalytic activity, acting on a nucleic acid histone chaperone activity protein carrier activity ATP-dependent activity ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA ATP-dependent histone chaperone activity catalytic activity protein binding binding signaling receptor binding Toll-like receptor binding catalytic activity, acting on a protein catalytic activity, acting on a nucleic acid histone chaperone activity protein carrier activity ATP-dependent activity ATP-dependent activity, acting on DNA ATP-dependent chromatin remodeler activity catalytic activity, acting on DNA ATP-dependent histone chaperone activity catalytic activity molecular carrier activity Toll binding interleukin-1 receptor binding cytokine receptor binding growth factor receptor binding TIR domain binding protein domain specific binding tumor necrosis factor receptor superfamily binding death receptor binding molecular adaptor activity identical protein binding protein-macromolecule adaptor activity signaling adaptor activity	cellular response to stimulus regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus toll-like receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus cell communication positive regulation of response to stimulus cellular response to stimulus regulation of defense response positive regulation of response to biotic stimulus regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of cellular process pattern recognition receptor signaling pathway response to stimulus regulation of response to external stimulus toll-like receptor signaling pathway signaling positive regulation of biological process response to biotic stimulus cell communication positive regulation of response to stimulus immune response-activating signaling pathway positive regulation of response to external stimulus immune response-regulating signaling pathway positive regulation of immune response regulation of response to stress response to stress innate immune response regulation of immune system process response to external biotic stimulus signal transduction positive regulation of immune system process innate immune response-activating signaling pathway MyD88-dependent toll-like receptor signaling pathway regulation of biological process positive regulation of innate immune response defense response immune response response to other organism regulation of innate immune response biological regulation defense response to symbiont response to external stimulus regulation of response to stimulus immune system process defense response to other organism positive regulation of defense response activation of innate immune response regulation of immune response cellular process activation of immune response 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 localization import into cell transport phagocytosis endocytosis establishment of localization vesicle-mediated transport regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process cell surface receptor signaling pathway interleukin-33-mediated signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to cytokine stimulus apoptotic process cell death programmed cell death Toll signaling pathway defense response to bacterium response to bacterium multicellular organismal process interleukin-1 production regulation of interleukin-1 beta production positive regulation of interleukin-1 beta production 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 multicellular organismal process positive regulation of cytokine production positive regulation of interleukin-8 production interleukin-8 production regulation of interleukin-8 production immune response-regulating cell surface receptor signaling pathway cell surface toll-like receptor signaling pathway immune response-activating cell surface receptor signaling pathway toll-like receptor 5 signaling pathway innate immune response activating cell surface receptor signaling pathway cell surface pattern recognition receptor signaling pathway defense response to protozoan response to protozoan intracellular signal transduction cellular component biogenesis cellular component assembly inflammasome-mediated signaling pathway canonical inflammasome complex assembly NLRP3 inflammasome complex assembly inflammatory response cytoplasmic pattern recognition receptor signaling pathway intracellular receptor signaling pathway cellular component organization protein-containing complex assembly cellular component organization or biogenesis protein-containing complex organization JNK cascade intracellular signaling cassette MAPK cascade regulation of protein modification process regulation of catalytic activity regulation of protein phosphorylation regulation of transferase activity regulation of MAP kinase activity regulation of primary metabolic process phosphate-containing compound metabolic process protein metabolic process protein modification process protein phosphorylation phosphorylation regulation of protein metabolic process primary metabolic process regulation of protein kinase activity regulation of molecular function regulation of kinase activity regulation of protein serine/threonine kinase activity macromolecule modification regulation of phosphorylation cell population proliferation regulation of smooth muscle cell proliferation positive regulation of cell population proliferation smooth muscle cell proliferation positive regulation of smooth muscle cell proliferation regulation of cell population proliferation muscle cell proliferation negative regulation of biological process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA stabilization mRNA catabolic process negative regulation of metabolic process nucleobase-containing compound catabolic process negative regulation of gene expression negative regulation of macromolecule biosynthetic process nucleic acid catabolic process negative regulation of RNA metabolic process catabolic process RNA metabolic process macromolecule catabolic process negative regulation of mRNA metabolic process 3'-UTR-mediated mRNA stabilization regulation of mRNA catabolic process negative regulation of cellular process negative regulation of macromolecule metabolic process negative regulation of catabolic process negative regulation of mRNA catabolic process negative regulation of RNA catabolic process regulation of catabolic process mRNA metabolic process nucleic acid metabolic process regulation of mRNA stability RNA stabilization negative regulation of biosynthetic process regulation of RNA stability regulation of mRNA metabolic process toll-like receptor 8 signaling pathway endolysosomal toll-like receptor signaling pathway defense response to virus response to virus positive regulation of type I interferon production type I interferon production regulation of type I interferon production positive regulation of DNA-templated transcription RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription interferon-mediated signaling pathway cellular response to type I interferon type I interferon-mediated signaling pathway response to type I interferon response to acid chemical response to amino acid positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction regulation of signal transduction regulation of intracellular signal transduction regulation of signaling positive regulation of intracellular signal transduction canonical NF-kappaB signal transduction regulation of cell communication regulation of canonical NF-kappaB signal transduction positive regulation of signaling toll-like receptor 4 signaling pathway developmental process skin development animal organ development anatomical structure development interleukin-6 production positive regulation of interleukin-6 production regulation of interleukin-6 production response to interleukin-1 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 chemical stimulus cellular response to lipid response to molecule of bacterial origin response to alcohol response to ethanol regulation of NLRP3 inflammasome complex assembly positive regulation of NLRP3 inflammasome complex assembly positive regulation of pattern recognition receptor signaling pathway 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 positive regulation of cellular component biogenesis regulation of cellular component biogenesis regulation of inflammatory response response to mechanical stimulus response to abiotic stimulus cellular response to mechanical stimulus cellular response to abiotic stimulus cellular response to external stimulus cellular response to environmental stimulus toll-like receptor TLR6:TLR2 signaling pathway positive regulation of interleukin-23 production interleukin-23 production regulation of interleukin-23 production interleukin-17 production regulation of interleukin-17 production positive regulation of interleukin-17 production cellular response to interleukin-1 interleukin-1-mediated signaling pathway 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 response to amine response to nitrogen compound defense response to Gram-positive bacterium	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery extrinsic component of plasma membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane membrane plasma membrane extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane side of membrane endosome membrane cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery extrinsic component of plasma membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane membrane plasma membrane extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane side of membrane endosome membrane membrane-bounded organelle endosome intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle membrane bounding membrane of organelle vesicle membrane cytoplasmic vesicle organelle vesicle organelle membrane cell surface protein-containing complex nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000488	Death domain	Domain
A	IPR035897	Toll/interleukin-1 receptor homology (TIR) domain superfamily	Homologous Superfamily
A	IPR000157	Toll/interleukin-1 receptor homology (TIR) domain	Domain
A	IPR011029	Death-like domain superfamily	Homologous Superfamily
A	IPR034249	MyD88, death domain	Domain
A	IPR017281	Myeloid differentiation primary response protein MyD88	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: Q99836	diffuse large B-cell lymphoma pyogenic bacterial infections due to MyD88 deficiency Waldenstrom macroglobulinemia follicular lymphoma pneumonia hypertensive disorder lymphoplasmacytic lymphoma Neoplasm Invasiveness macroglobulinemia extrahepatic cholestasis hypereosinophilic syndrome ischemia reperfusion injury lung cancer lymphoma arthritic joint disease diffuse large B-cell lymphoma pyogenic bacterial infections due to MyD88 deficiency Waldenstrom macroglobulinemia follicular lymphoma pneumonia hypertensive disorder lymphoplasmacytic lymphoma Neoplasm Invasiveness macroglobulinemia extrahepatic cholestasis hypereosinophilic syndrome ischemia reperfusion injury lung cancer lymphoma arthritic joint disease cancer congenital anemia macroglobulinemia, Waldenstrom, 1 multiple sclerosis ovarian cancer glioblastoma psoriasis subependymal giant cell astrocytoma juvenile dermatomyositis lung carcinoma astrocytic tumor cutaneous lupus erythematosus malignant glioma pancreatic intraductal papillary-mucinous neoplasm pneumonitis hematologic disease lymphatic system disease autoimmune disease colitis malignant mesothelioma pilocytic astrocytoma primitive neuroectodermal tumor

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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.