Annotations: 8P6Q

Racemic structure of TNFR1 cysteine-rich domain

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	TNF receptor-like	8038880	3000971	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	DNA_topoisoIV	e8p6qB1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: DNA_topoisoIV	ECOD (v295.2)
A	Pestivirus_E2	e8p6qA01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Pestivirus_E2	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00020	TNFR/NGFR cysteine-rich region (TNFR_c6)	TNFR/NGFR cysteine-rich region		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	D-TNFR-1 CRD2	-	-	-
A	Tumor necrosis factor-binding protein 1	molecular transducer activity signaling receptor activity transmembrane signaling receptor activity tumor necrosis factor receptor activity death receptor activity protein binding binding cytokine binding tumor necrosis factor binding	cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus signal transduction positive regulation of cell communication positive regulation of signal transduction positive regulation of canonical NF-kappaB signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette positive regulation of cellular process 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 developmental process multicellular organismal process cellular developmental process establishment of blood-brain barrier cell development nervous system development multicellular organism development central nervous system development cell differentiation anatomical structure development animal gross anatomical part developmental process system development regulation of defense response regulation of response to external stimulus defense response response to external stimulus regulation of inflammatory response positive regulation of response to external stimulus positive regulation of inflammatory response regulation of response to stress response to stress positive regulation of defense response inflammatory response negative regulation of extracellular matrix organization regulation of localization regulation of cellular component organization transport negative regulation of biological process extracellular matrix organization negative regulation of transport cellular component organization localization negative regulation of secretion regulation of secretion by cell secretion by cell negative regulation of cellular process negative regulation of secretion by cell cellular component organization or biogenesis regulation of extracellular matrix constituent secretion extracellular structure organization negative regulation of cellular component organization regulation of transport secretion export from cell establishment of localization regulation of secretion negative regulation of extracellular matrix constituent secretion extracellular matrix constituent secretion regulation of extracellular matrix organization external encapsulating structure organization negative regulation of inflammatory response negative regulation of response to stimulus negative regulation of response to external stimulus negative regulation of defense response prostaglandin metabolic process icosanoid metabolic process fatty acid metabolic process unsaturated fatty acid metabolic process oxoacid metabolic process carboxylic acid metabolic process primary metabolic process prostanoid metabolic process small molecule metabolic process metabolic process monocarboxylic acid metabolic process lipid metabolic process biological process involved in interspecies interaction between organisms response to lipid response to other organism 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 response to biotic stimulus cellular response to biotic stimulus cellular response to chemical stimulus response to bacterium cellular response to lipid response to external biotic stimulus response to molecule of bacterial origin protein localization to cell periphery cellular localization protein localization to plasma membrane macromolecule localization intracellular protein localization localization within membrane protein localization to membrane positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process regulation of execution phase of apoptosis positive regulation of execution phase of apoptosis execution phase of apoptosis apoptotic process programmed cell death heart development heart valve development animal organ development circulatory system development pulmonary valve development semi-lunar valve development extrinsic apoptotic signaling pathway via death domain receptors extrinsic apoptotic signaling pathway apoptotic signaling pathway positive regulation of phosphorylation regulation of catalytic activity regulation of transferase activity positive regulation of phosphate metabolic process regulation of primary metabolic process positive regulation of metabolic process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein modification process positive regulation of protein phosphorylation activation of NF-kappaB-inducing kinase activity protein phosphorylation phosphorylation non-canonical NF-kappaB signal transduction regulation of protein metabolic process regulation of molecular function positive regulation of kinase activity regulation of kinase activity activation of protein kinase activity macromolecule modification macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of molecular function positive regulation of protein modification process protein metabolic process positive regulation of protein kinase activity positive regulation of catalytic activity regulation of protein kinase activity regulation of macromolecule metabolic process regulation of phosphorylation cell surface receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT biosynthetic process gene expression macromolecule biosynthetic process astrocyte differentiation astrocyte activation glial cell development neurogenesis astrocyte development gliogenesis cell activation glial cell differentiation glial cell activation neuroinflammatory 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 regulation of establishment of endothelial barrier regulation of developmental process endothelium development regulation of cell differentiation epithelial cell differentiation regulation of cell development regulation of epithelial cell differentiation endothelial cell development regulation of endothelial cell development regulation of multicellular organismal process epithelium development regulation of multicellular organismal development endothelial cell differentiation regulation of endothelial cell differentiation tissue development epithelial cell development establishment of endothelial barrier cellular response to tumor necrosis factor tumor necrosis factor-mediated signaling pathway response to tumor necrosis factor apoptotic process involved in morphogenesis apoptotic process involved in development positive regulation of developmental process positive regulation of apoptotic process involved in morphogenesis positive regulation of apoptotic process involved in development regulation of apoptotic process involved in development anatomical structure morphogenesis aortic valve development muscle hypertrophy regulation of muscle adaptation system process negative regulation of muscle hypertrophy regulation of system process striated muscle hypertrophy regulation of muscle system process muscle system process regulation of muscle hypertrophy regulation of cardiac muscle hypertrophy muscle adaptation cardiac muscle hypertrophy negative regulation of multicellular organismal process negative regulation of cardiac muscle hypertrophy positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic 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 positive regulation of biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription	cellular anatomical structure membrane cell surface cell periphery plasma membrane membrane microdomain membrane raft extracellular region membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus intracellular membrane-bounded organelle endomembrane system cellular anatomical structure membrane cell surface cell periphery plasma membrane membrane microdomain membrane raft extracellular region membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle organelle cytoplasm organelle membrane protein-containing complex signaling receptor complex tumor necrosis factor receptor superfamily complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR033993	Tumor necrosis factor receptor 1A, N-terminal	Domain
A	IPR052493	Tumor necrosis factor receptor superfamily member 1A	Family
A	IPR011029	Death-like domain superfamily	Homologous Superfamily
A	IPR020419	Tumour necrosis factor receptor 1A	Family
A	IPR000488	Death domain	Domain
A	IPR001368	TNFR/NGFR cysteine-rich region	Domain
A	IPR033994	Tumor necrosis factor receptor 1A, death domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: P19438	autosomal dominant familial periodic fever primary biliary cholangitis multiple sclerosis cystic fibrosis congestive heart failure autoimmune disease Diabetes Mellitus, Experimental amyloidosis allergic disease type 2 diabetes mellitus brain ischemia pneumonia celiac disease malignant ependymoma medulloblastoma autosomal dominant familial periodic fever primary biliary cholangitis multiple sclerosis cystic fibrosis congestive heart failure autoimmune disease Diabetes Mellitus, Experimental amyloidosis allergic disease type 2 diabetes mellitus brain ischemia pneumonia celiac disease malignant ependymoma medulloblastoma colorectal adenoma Crohn disease ovarian cancer pilocytic astrocytoma acquired metabolic disease pneumonitis schizophrenia arthritic joint disease heart failure intermittent hydrarthrosis brain injury lung carcinoma malignant pancreatic neoplasm colorectal cancer multiple sclerosis, susceptibility to, 5 pancreatic ductal adenocarcinoma pituitary cancer ankylosing spondylitis glioblastoma astrocytic tumor Behcet disease juvenile idiopathic arthritis cancer maturity-onset diabetes of the young depressive disorder periodic fever syndrome exocrine pancreatic carcinoma subependymal giant cell astrocytoma hepatocellular carcinoma large cell medulloblastoma lung cancer

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	DAR
B	DAS	: AA0190 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930
B	DCY	: AA0190
B	DGL	: AA0190
B	DGN	: AA0190
B	DHI	: AA0190
B	DIL	: AA0190 , AA0192 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199
B	DLE	: AA0190 , AA0192 , AA0197 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204
B	DLY	: AA0190 , AA0192 , AA0197
B	DPN	: AA0190 , AA0192 , AA0197 , AA0194 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201
B	DSG	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985
B	DSN	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985 , D-serine (Ser) MOD:00202 , D-serine MOD:00891 , D-serine (Cys) MOD:00892 , 2-(L-cystein-S-yl)-D-serine MOD:01987
B	DTH	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 , AA0199 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985 , D-serine (Ser) MOD:00202 , D-serine MOD:00891 , D-serine (Cys) MOD:00892 , 2-(L-cystein-S-yl)-D-serine MOD:01987 , D-allo-threonine MOD:00863
B	DTR	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 , AA0199 , AA0198 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985 , D-serine (Ser) MOD:00202 , D-serine MOD:00891 , D-serine (Cys) MOD:00892 , 2-(L-cystein-S-yl)-D-serine MOD:01987 , D-allo-threonine MOD:00863 , D-tryptophan MOD:00205
B	DTY	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 , AA0199 , AA0198
B	DVA	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 , AA0199 , AA0198 , AA0200 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985 , D-serine (Ser) MOD:00202 , D-serine MOD:00891 , D-serine (Cys) MOD:00892 , 2-(L-cystein-S-yl)-D-serine MOD:01987 , D-allo-threonine MOD:00863 , D-tryptophan MOD:00205 , D-valine MOD:00705
B	MED	: AA0190 , AA0192 , AA0197 , AA0194 , AA0196 , AA0622 , AA0195 , AA0624 , AA0199 , AA0198 , AA0200 , AA0193 : D-aspartic acid (Asp) MOD:01921 , D-aspartic acid (Asn) MOD:01930 , D-allo-isoleucine MOD:00199 , D-leucine MOD:00204 , D-phenylalanine MOD:00201 , D-asparagine MOD:00203 , 2-(L-cystein-S-yl)-D-asparagine MOD:01985 , D-serine (Ser) MOD:00202 , D-serine MOD:00891 , D-serine (Cys) MOD:00892 , 2-(L-cystein-S-yl)-D-serine MOD:01987 , D-allo-threonine MOD:00863 , D-tryptophan MOD:00205 , D-valine MOD:00705 , D-methionine MOD:00200