MultifacetedProtDB - Bologna Biocomputing Group

Structure

PDB	Resolution (Å)	PDB name
3AJM	2.3	Crystal structure of programmed cell death 10 in complex with inositol 1,3,4,5-tetrakisphosphate
3L8I	2.5	Crystal structure of CCM3, a cerebral cavernous malformation protein critical for vascular integrity
3L8J	3.05	Crystal structure of CCM3, a cerebral cavernous malformation protein critical for vascular integrity
3RQE	2.8	Cerebral cavernous malformation 3 (CCM3) in complex with paxillin LD1
3RQF	2.7	Cerebral cavernous malformation 3 (CCM3) in complex with paxillin LD2
3RQG	2.5	Cerebral cavernous malformation 3 (CCM3) in complex with paxillin LD4
3W8H	2.426	Crystal structure of CCM3 in complex with the C-terminal regulatory domain of STK25
3W8I	2.4	Crystal structure of CCM3 in complex with the C-terminal regulatory domain of MST4
4GEH	1.95	Crystal structure of MST4 dimerization domain complex with PDCD10
4TVQ	2.8	CCM3 in complex with CCM2 LD-like motif

GO term

GO ontology	GO term	GO description
Biological Process	GO:0090168	Golgi reassembly
Biological Process	GO:0001525	angiogenesis
Biological Process	GO:1990830	cellular response to leukemia inhibitory factor
Biological Process	GO:0003158	endothelium development
Biological Process	GO:0051683	establishment of Golgi localization
Biological Process	GO:0036481	intrinsic apoptotic signaling pathway in response to hydrogen peroxide
Biological Process	GO:0043066	negative regulation of apoptotic process
Biological Process	GO:1903588	negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis
Biological Process	GO:0090051	negative regulation of cell migration involved in sprouting angiogenesis
Biological Process	GO:0010629	negative regulation of gene expression
Biological Process	GO:0043406	positive regulation of MAP kinase activity
Biological Process	GO:0045747	positive regulation of Notch signaling pathway
Biological Process	GO:0030335	positive regulation of cell migration
Biological Process	GO:0008284	positive regulation of cell population proliferation
Biological Process	GO:0010628	positive regulation of gene expression
Biological Process	GO:0090316	positive regulation of intracellular protein transport
Biological Process	GO:0033138	positive regulation of peptidyl-serine phosphorylation
Biological Process	GO:0071902	positive regulation of protein serine/threonine kinase activity
Biological Process	GO:0032874	positive regulation of stress-activated MAPK cascade
Biological Process	GO:0050821	protein stabilization
Biological Process	GO:1903358	regulation of Golgi organization
Biological Process	GO:0045765	regulation of angiogenesis
Biological Process	GO:0031098	stress-activated protein kinase signaling cascade
Biological Process	GO:0044319	wound healing, spreading of cells
Molecular Function	GO:0042803	protein homodimerization activity
Molecular Function	GO:0019901	protein kinase binding
Cellular Component	GO:0090443	FAR/SIN/STRIPAK complex
Cellular Component	GO:0005794	Golgi apparatus
Cellular Component	GO:0000139	Golgi membrane
Cellular Component	GO:0005737	cytoplasm
Cellular Component	GO:0005829	cytosol
Cellular Component	GO:0070062	extracellular exosome
Cellular Component	GO:0005886	plasma membrane

InterPro / Pfam

InterPro	InterPro name
IPR009652	Programmed cell death protein 10
IPR046409	Programmed cell death protein 10, dimerisation domain superfamily

Pfam	Pfam name
PF06840	Protein of unknown function (DUF1241)

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

HPO ID	HPO name
HP:0000006	Autosomal dominant inheritance
HP:0001028	Hemangioma
HP:0001250	Seizure
HP:0001342	Cerebral hemorrhage
HP:0002315	Headache
HP:0002516	Increased intracranial pressure
HP:0002572	Episodic vomiting
HP:0002650	Scoliosis
HP:0002858	Meningioma
HP:0003470	Paralysis
HP:0003621	Juvenile onset
HP:0007872	Choroidal hemangioma
HP:0011276	Vascular skin abnormality
HP:0011513	Retinal cavernous angioma
HP:0012721	Venous malformation
HP:0012748	Focal T2 hyperintense brainstem lesion
HP:0012749	Focal T2 hypointense brainstem lesion
HP:0030430	Neuroma
HP:0033522	Cerebral cavernous malformation
HP:0100543	Cognitive impairment
HP:0100561	Spinal cord lesion

Tissue and cell type

Tissue	Cell type	Expression level	Reliability
adipose tissue	adipocytes	Low	Approved
adrenal gland	glandular cells	High	Approved
appendix	glandular cells	Medium	Approved
appendix	lymphoid tissue	Medium	Approved
bone marrow	hematopoietic cells	Low	Approved
breast	adipocytes	Medium	Approved
breast	glandular cells	Medium	Approved
bronchus	respiratory epithelial cells	Medium	Approved
caudate	glial cells	Low	Approved
caudate	neuronal cells	Medium	Approved
cerebellum	Purkinje cells	Medium	Approved
cerebellum	cells in granular layer	Low	Approved
cerebellum	cells in molecular layer	Low	Approved
cerebral cortex	endothelial cells	Medium	Approved
cerebral cortex	glial cells	Low	Approved
cerebral cortex	neuronal cells	Low	Approved
cerebral cortex	neuropil	Medium	Approved
cervix	glandular cells	Medium	Approved
cervix	squamous epithelial cells	Low	Approved
colon	endothelial cells	Medium	Approved
colon	glandular cells	Medium	Approved
colon	peripheral nerve/ganglion	Low	Approved
duodenum	glandular cells	High	Approved
endometrium 1	cells in endometrial stroma	Medium	Approved
endometrium 1	glandular cells	Medium	Approved
endometrium 2	glandular cells	Medium	Approved
epididymis	glandular cells	High	Approved
esophagus	squamous epithelial cells	Medium	Approved
fallopian tube	glandular cells	High	Approved
gallbladder	glandular cells	High	Approved
heart muscle	cardiomyocytes	Low	Approved
hippocampus	glial cells	Low	Approved
hippocampus	neuronal cells	Medium	Approved
kidney	cells in glomeruli	Medium	Approved
kidney	cells in tubules	High	Approved
liver	cholangiocytes	Medium	Approved
liver	hepatocytes	Medium	Approved
lung	alveolar cells	Medium	Approved
lung	macrophages	Medium	Approved
lymph node	germinal center cells	Medium	Approved
lymph node	non-germinal center cells	Medium	Approved
nasopharynx	respiratory epithelial cells	Medium	Approved
oral mucosa	squamous epithelial cells	Low	Approved
ovary	follicle cells	Medium	Approved
pancreas	exocrine glandular cells	High	Approved
pancreas	pancreatic endocrine cells	Medium	Approved
parathyroid gland	glandular cells	Medium	Approved
placenta	decidual cells	High	Approved
placenta	trophoblastic cells	High	Approved
prostate	glandular cells	High	Approved
rectum	glandular cells	High	Approved
salivary gland	glandular cells	Low	Approved
seminal vesicle	glandular cells	High	Approved
skeletal muscle	myocytes	Low	Approved
skin 1	Langerhans	Low	Approved
skin 1	keratinocytes	Low	Approved
skin 1	melanocytes	Low	Approved
skin 2	epidermal cells	Low	Approved
small intestine	glandular cells	High	Approved
smooth muscle	smooth muscle cells	High	Approved
soft tissue 1	chondrocytes	Medium	Approved
soft tissue 1	peripheral nerve	Medium	Approved
spleen	cells in red pulp	Low	Approved
spleen	cells in white pulp	Low	Approved
stomach 1	glandular cells	High	Approved
stomach 2	glandular cells	High	Approved
testis	Leydig cells	High	Approved
testis	cells in seminiferous ducts	Medium	Approved
thyroid gland	glandular cells	High	Approved
tonsil	germinal center cells	Medium	Approved
tonsil	non-germinal center cells	High	Approved
tonsil	squamous epithelial cells	Medium	Approved
urinary bladder	urothelial cells	Medium	Approved
vagina	squamous epithelial cells	Low	Approved

Location	ECO term	Pubmed
Cell membrane
Cytoplasm
Golgi apparatus membrane

Summary of Q9BUL8

Gene: PDCD10, CCM3, TFAR15
Protein: Programmed cell death protein 10

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Summary of Q9BUL8

Gene: PDCD10, CCM3, TFAR15 Protein: Programmed cell death protein 10

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Gene: PDCD10, CCM3, TFAR15
Protein: Programmed cell death protein 10