1RJ8 | pdb_00001rj8

The crystal structure of TNF family member EDA-A2

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F [auth G]	d1rj8g_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E [auth F]	d1rj8f_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D [auth E]	d1rj8e_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth D]	d1rj8d_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d1rj8b_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1rj8a_	All beta proteins	TNF-like	TNF-like	TNF-like	Ectodysplasin A, Eda-a1	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)
F [auth G]	SCOP2B Superfamily	TNF-like	8040692	3000061	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	TNF-like	8040692	3000061	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	TNF-like	8040692	3000061	SCOP2B (2022-06-29)
C [auth D]	SCOP2B Superfamily	TNF-like	8040692	3000061	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TNF-like	8040692	3000061	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	TNF-like	8040692	3000061	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)
F [auth G]	TNF	e1rj8G1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: TNF	ECOD (v294.1)
E [auth F]	TNF	e1rj8F1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: TNF	ECOD (v294.1)
D [auth E]	TNF	e1rj8E1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: TNF	ECOD (v294.1)
C [auth D]	TNF	e1rj8D1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: TNF	ECOD (v294.1)
B	TNF	e1rj8B1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: TNF	ECOD (v294.1)
A	TNF	e1rj8A1	A: beta sandwiches	X: jelly-roll	H: TNF-like	T: TNF-like	F: TNF	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth G]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
E [auth F]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
D [auth E]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
C [auth D]	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
B	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)
A	2.60.120.40	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	PF00229	TNF(Tumour Necrosis Factor) family (TNF)	TNF(Tumour Necrosis Factor) family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	ectodysplasin-A isoform EDA-A2	protein binding binding signaling receptor binding molecular function activator activity molecular function regulator activity cytokine activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity cytokine receptor binding tumor necrosis factor receptor superfamily binding death receptor binding death receptor agonist activity tumor necrosis factor receptor binding	developmental process multicellular organismal process salivary gland cavitation tube development gland development animal organ development salivary gland development tube formation multicellular organism development anatomical structure morphogenesis tube morphogenesis gland morphogenesis salivary gland morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis developmental process multicellular organismal process salivary gland cavitation tube development gland development animal organ development salivary gland development tube formation multicellular organism development anatomical structure morphogenesis tube morphogenesis gland morphogenesis salivary gland morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis tube lumen cavitation animal organ morphogenesis exocrine system development system development trachea submucosa development trachea gland development trachea development respiratory system development cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process 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 response to cytokine stimulus signal transduction epithelium development ectodermal placode morphogenesis epidermis development molting cycle process hair cycle hair follicle placode formation tissue development ectodermal placode formation skin development skin epidermis development hair follicle development molting cycle ectodermal placode development hair cycle process 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 cellular developmental process cell differentiation immune response immune system process canonical Wnt signaling pathway Wnt signaling pathway odontogenesis of dentin-containing tooth odontogenesis 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 non-canonical NF-kappaB signal transduction regulation of non-canonical NF-kappaB signal transduction positive regulation of non-canonical NF-kappaB signal transduction pigmentation regulation of canonical Wnt signaling pathway positive regulation of Wnt signaling pathway positive regulation of canonical Wnt signaling pathway regulation of Wnt signaling pathway	protein-containing complex collagen trimer cellular anatomical structure membrane apical part of cell cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle protein-containing complex collagen trimer cellular anatomical structure membrane apical part of cell cell periphery plasma membrane membrane-bounded organelle intracellular anatomical structure organelle subcompartment intracellular membrane-bounded organelle endomembrane system endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum cytoplasm organelle membrane endoplasmic reticulum membrane cytoskeleton membraneless organelle intracellular membraneless organelle lipid droplet

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	IPR008983	Tumour necrosis factor-like domain superfamily	Homologous Superfamily
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	IPR051748	Tumor Necrosis Factor Ligand Superfamily	Family
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	IPR006052	Tumour necrosis factor domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C [auth D], D [auth E], E [auth F], A, B, C [auth D], D [auth E], E [auth F], F [auth G]	Pharos: Q92838	hypohidrotic ectodermal dysplasia tooth agenesis, selective, X-linked, 1 melanoma tooth agenesis X-linked hypohidrotic ectodermal dysplasia anodontia cutaneous melanoma psoriasis Christ-Siemens-Touraine syndrome ectodermal dysplasia syndrome intellectual disability colorectal cancer malignant mesothelioma peeling skin syndrome

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.