1YO8 | pdb_00001yo8

Structure of the C-terminal domain of human thrombospondin-2

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
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	PI3K_rbd,PIK3CG_ABD	e1yo8A1	A: a/b three-layered sandwiches	X: Transmembrane heme-binding four-helical bundle	H: Anticodon-binding domain of Class II aaRS	T: Anticodon-binding domain of Class II aaRS	F: PI3K_rbd,PIK3CG_ABD	ECOD (v294.1)
A		e1yo8A5	A: a/b three-layered sandwiches	X: TIM beta/alpha-barrel	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F:	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.10.25.10	Mainly Beta	Ribbon	Laminin	Laminin	CATH (4.3.0)
A	2.60.120.200	Mainly Beta	Sandwich	Jelly Rolls		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF12947	EGF domain (EGF_3)	EGF domain	This family includes a variety of EGF-like domain homologues. This family includes the C-terminal domain of the malaria parasite MSP1 protein [1].	Domain
A	PF02412	Thrombospondin type 3 repeat (TSP_3)	Thrombospondin type 3 repeat	The thrombospondin repeat is a short aspartate rich repeat which binds to calcium ions. The repeat was initially identified in thrombospondin proteins that contained 7 of these repeats [1]. The repeat lacks defined secondary structure [2].	Domain
A	PF05735	Thrombospondin C-terminal region (TSP_C)	Thrombospondin C-terminal region	This region is found at the C-terminus of thrombospondin and related proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	thrombospondin-2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding heparin binding glycosaminoglycan binding carbohydrate derivative binding sulfur compound binding	positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development positive regulation of nervous system development multicellular organismal process regulation of cellular process positive regulation of cellular component organization regulation of cellular component organization regulation of developmental process positive regulation of biological process regulation of nervous system development positive regulation of developmental process cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly anatomical structure development regulation of multicellular organismal process regulation of synapse structure or activity synapse organization cellular component organization or biogenesis regulation of synapse assembly regulation of biological quality positive regulation of cellular process system development developmental process regulation of multicellular organismal development regulation of biological process positive regulation of cellular component biogenesis biological regulation nervous system development regulation of cellular component biogenesis regulation of cell junction assembly positive regulation of cell junction assembly regulation of synapse organization cell junction organization positive regulation of multicellular organismal process cellular process synapse assembly positive regulation of synapse assembly cell adhesion negative regulation of biological process angiogenesis regulation of vasculature development tube morphogenesis regulation of anatomical structure morphogenesis blood vessel development blood vessel morphogenesis tube development negative regulation of blood vessel morphogenesis negative regulation of developmental process negative regulation of angiogenesis vasculature development circulatory system development negative regulation of vasculature development anatomical structure morphogenesis regulation of angiogenesis anatomical structure formation involved in morphogenesis negative regulation of multicellular organismal process	cellular anatomical structure extracellular region membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule cellular anatomical structure extracellular region membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm platelet alpha granule vesicle basement membrane extracellular matrix external encapsulating structure

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000884	Thrombospondin type-1 (TSP1) repeat	Repeat
A	IPR024731	NELL2-like, EGF domain	Domain
A	IPR008859	Thrombospondin, C-terminal	Domain
A	IPR017897	Thrombospondin, type 3 repeat	Repeat
A	IPR003367	Thrombospondin, type 3-like repeat	Repeat
A	IPR036383	Thrombospondin type-1 repeat superfamily	Homologous Superfamily
A	IPR028974	TSP type-3 repeat	Homologous Superfamily
A	IPR001007	VWFC domain	Domain
A	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A	IPR001881	EGF-like calcium-binding domain	Domain
A	IPR048287	Thrombospondin-like, N-terminal domain	Domain
A	IPR000742	EGF-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P35442	diabetic peripheral angiopathy lumbar disc degenerative disorder diabetes mellitus Microangiopathy, Diabetic ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis atypical teratoid rhabdoid tumor glioblastoma intervertebral disc degenerative disorder lung cancer malignant pancreatic neoplasm nasopharyngeal carcinoma pancreatic ductal adenocarcinoma pilocytic astrocytoma diabetic peripheral angiopathy lumbar disc degenerative disorder diabetes mellitus Microangiopathy, Diabetic ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis atypical teratoid rhabdoid tumor glioblastoma intervertebral disc degenerative disorder lung cancer malignant pancreatic neoplasm nasopharyngeal carcinoma pancreatic ductal adenocarcinoma pilocytic astrocytoma breast cancer esophageal adenocarcinoma interstitial cystitis malignant glioma medulloblastoma non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma pituitary cancer gastric carcinoma interstitial lung disease large cell medulloblastoma lung adenocarcinoma malignant mesothelioma

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.