Annotations: 1NCF

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1ncfa3	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1ncfa2	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, middle domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1ncfa1	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, N-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1ncfa4	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ncfb3	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, C-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ncfb2	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, middle domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1ncfb1	Small proteins	TNF receptor-like	TNF receptor-like	TNF receptor-like	Tumor necrosis factor (TNF) receptor, N-terminal domain	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

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)
A	SCOP2B Superfamily	TNF receptor-like	8038879	3000971	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TNF receptor-like	8038880	3000971	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TNF receptor-like	8038879	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)
A	TNFR_c6_2	e1ncfA3	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_2	ECOD (1.6)
A	TNFR_c6_1	e1ncfA2	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_1	ECOD (1.6)
B	TNFR_c6_2	e1ncfB1	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_2	ECOD (1.6)
B	TNFR_c6_1	e1ncfB3	A: few secondary structure elements	X: EGF-like	H: EGF-related	T: TNF receptor-like	F: TNFR_c6_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)
B	2.10.50.10	Mainly Beta	Ribbon	Tumor Necrosis Factor Receptor, subunit A	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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
A, B	TUMOR NECROSIS FACTOR RECEPTOR	molecular transducer activity transmembrane signaling receptor activity 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 response to stimulus cell surface receptor signaling pathway signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular response to cytokine stimulus cellular process cellular response to stimulus regulation of biological process regulation of cellular process response to stimulus cell surface receptor signaling pathway signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular response to cytokine stimulus cellular process 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 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 regulation of lipid metabolic process primary metabolic process regulation of primary metabolic process positive regulation of metabolic process positive regulation of lipid metabolic process metabolic process regulation of metabolic process lipid metabolic process cellular biosynthetic process cellular metabolic process RNA metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process macromolecule metabolic process 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 regulation of amide metabolic process positive regulation of amide metabolic process amide metabolic process prostaglandin metabolic process icosanoid metabolic process fatty acid metabolic process unsaturated fatty acid metabolic process oxoacid metabolic process carboxylic acid metabolic process organic acid metabolic process prostanoid metabolic process cellular lipid metabolic process small molecule metabolic process monocarboxylic acid metabolic process protein localization protein localization to cell periphery cellular localization protein localization to plasma membrane cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane biological process involved in interspecies interaction between organisms response to other organism response to biotic stimulus defense response to bacterium defense response to other organism response to bacterium response to external biotic stimulus 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 developmental process heart development multicellular organismal process heart valve development animal organ development circulatory system development multicellular organism development pulmonary valve development anatomical structure development semi-lunar valve development system development extrinsic apoptotic signaling pathway via death domain receptors extrinsic apoptotic signaling pathway apoptotic signaling pathway cellular response to stress DNA damage response intrinsic apoptotic signaling pathway in response to DNA damage intrinsic apoptotic signaling pathway 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 positive regulation of phosphorylation positive regulation of phosphate metabolic process regulation of phosphate metabolic process peptidyl-amino acid modification phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein modification process phosphorus metabolic process positive regulation of protein phosphorylation tyrosine phosphorylation of STAT protein protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process regulation of cellular metabolic process macromolecule modification regulation of phosphorus metabolic process cell surface receptor signaling pathway via STAT regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of cellular metabolic process peptidyl-tyrosine modification positive regulation of peptidyl-tyrosine phosphorylation positive regulation of protein modification process protein metabolic process regulation of tyrosine phosphorylation of STAT protein regulation of peptidyl-tyrosine phosphorylation regulation of macromolecule metabolic process positive regulation of tyrosine phosphorylation of STAT protein regulation of phosphorylation peptidyl-tyrosine phosphorylation cell surface receptor signaling pathway via JAK-STAT membrane lipid metabolic process regulation of membrane lipid metabolic process regulation of establishment of endothelial barrier cellular developmental process regulation of developmental process endothelium development cell development regulation of cell differentiation epithelial cell differentiation regulation of cell development regulation of epithelial cell differentiation endothelial cell development cell differentiation 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 regulation of apoptotic process involved in 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 regulation of tumor necrosis factor-mediated signaling pathway regulation of cytokine-mediated signaling pathway regulation of response to cytokine stimulus positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process regulation of RNA metabolic process 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 nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II regulation of cellular biosynthetic 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 positive regulation of cellular biosynthetic process	membrane cellular anatomical entity cell surface cell periphery plasma membrane membrane microdomain membrane raft protein-containing complex receptor complex extracellular region membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus membrane cellular anatomical entity cell surface cell periphery plasma membrane membrane microdomain membrane raft protein-containing complex receptor complex 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 tumor necrosis factor receptor superfamily complex extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

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

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: 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 colorectal adenoma 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 colorectal adenoma medulloblastoma 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

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.