MultifacetedProtDB - Bologna Biocomputing Group

EC number	EC number description
2.3.2.23	Transferases; Acyltransferases; Aminoacyltransferases; E2 ubiquitin-conjugating enzyme
2.3.2.24	Transferases; Acyltransferases; Aminoacyltransferases; (E3-independent) E2 ubiquitin-conjugating enzyme

Structure

PDB	Resolution (Å)	PDB name
2C4P	2.35	Crystal structure of human ubiquitin-conjugating enzyme UbcH5A
2YHO	2.1	The IDOL-UBE2D complex mediates sterol-dependent degradation of the LDL receptor
3OJ4	3.4	Crystal structure of the A20 ZnF4, ubiquitin and UbcH5A complex
3PTF	2.7	X-ray structure of the non-covalent complex between UbcH5A and Ubiquitin
4AP4	2.21	Rnf4 - ubch5a - ubiquitin heterotrimeric complex
4QPL	1.9	Crystal structure of RNF146(RING-WWE)/UbcH5a/iso-ADPr complex
5FER	2.34	Complex of TRIM25 RING with UbcH5-Ub
5TUT	2.604	UbcH5a-Ub isopeptide conjugate
6D4P	2.11	Ube2D1 in complex with ubiquitin variant Ubv.D1.1
7ZJ3	2.53	Structure of TRIM2 RING domain in complex with UBE2D1~Ub conjugate

GO term

GO ontology	GO term	GO description
Biological Process	GO:0030514	negative regulation of BMP signaling pathway
Biological Process	GO:0000122	negative regulation of transcription by RNA polymerase II
Biological Process	GO:1902916	positive regulation of protein polyubiquitination
Biological Process	GO:0031398	positive regulation of protein ubiquitination
Biological Process	GO:0070936	protein K48-linked ubiquitination
Biological Process	GO:0000209	protein polyubiquitination
Biological Process	GO:0006511	ubiquitin-dependent protein catabolic process
Molecular Function	GO:0005524	ATP binding
Molecular Function	GO:0061631	ubiquitin conjugating enzyme activity
Molecular Function	GO:0061630	ubiquitin protein ligase activity
Molecular Function	GO:0031625	ubiquitin protein ligase binding
Molecular Function	GO:0004842	ubiquitin-protein transferase activity
Cellular Component	GO:0005737	cytoplasm
Cellular Component	GO:0005829	cytosol
Cellular Component	GO:0005654	nucleoplasm
Cellular Component	GO:0005634	nucleus
Cellular Component	GO:0032991	protein-containing complex
Cellular Component	GO:0000151	ubiquitin ligase complex

InterPro / Pfam

InterPro	InterPro name
IPR000608	Ubiquitin-conjugating enzyme E2
IPR016135	Ubiquitin-conjugating enzyme/RWD-like
IPR023313	Ubiquitin-conjugating enzyme, active site

Pfam	Pfam name
PF00179	Ubiquitin-conjugating enzyme

Reactome

Reactome	Reactome Name	Node type	Reactome Root	Reactome Root Name
R-HSA-1234176	Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha	Leaf	R-HSA-8953897	Cellular responses to stimuli
R-HSA-141430	Inactivation of APC/C via direct inhibition of the APC/C complex	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-168927	TICAM1, RIP1-mediated IKK complex recruitment	Leaf	R-HSA-168256	Immune System
R-HSA-174048	APC/C:Cdc20 mediated degradation of Cyclin B	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-174084	Autodegradation of Cdh1 by Cdh1:APC/C	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-174154	APC/C:Cdc20 mediated degradation of Securin	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-174178	APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-174184	Cdc20:Phospho-APC/C mediated degradation of Cyclin A	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-176407	Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-176408	Regulation of APC/C activators between G1/S and early anaphase	Internal node	R-HSA-1640170	Cell Cycle
R-HSA-176409	APC/C:Cdc20 mediated degradation of mitotic proteins	Internal node	R-HSA-1640170	Cell Cycle
R-HSA-176412	Phosphorylation of the APC/C	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-179409	APC-Cdc20 mediated degradation of Nek2A	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-201451	Signaling by BMP	Leaf	R-HSA-162582	Signal Transduction
R-HSA-202424	Downstream TCR signaling	Leaf	R-HSA-168256	Immune System
R-HSA-2173795	Downregulation of SMAD2/3:SMAD4 transcriptional activity	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-2467813	Separation of Sister Chromatids	Leaf	R-HSA-1640170	Cell Cycle
R-HSA-2559582	Senescence-Associated Secretory Phenotype (SASP)	Leaf	R-HSA-8953897	Cellular responses to stimuli
R-HSA-2871837	FCERI mediated NF-kB activation	Leaf	R-HSA-168256	Immune System
R-HSA-5357905	Regulation of TNFR1 signaling	Leaf	R-HSA-162582	Signal Transduction
R-HSA-5607764	CLEC7A (Dectin-1) signaling	Internal node	R-HSA-168256	Immune System
R-HSA-5689896	Ovarian tumor domain proteases	Leaf	R-HSA-392499	Metabolism of proteins
R-HSA-68867	Assembly of the pre-replicative complex	Internal node	R-HSA-69306	DNA Replication
R-HSA-69017	CDK-mediated phosphorylation and removal of Cdc6	Leaf	R-HSA-69306	DNA Replication
R-HSA-8853884	Transcriptional Regulation by VENTX	Leaf	R-HSA-74160	Gene expression (Transcription)
R-HSA-8866652	Synthesis of active ubiquitin: roles of E1 and E2 enzymes	Leaf	R-HSA-392499	Metabolism of proteins
R-HSA-8866654	E3 ubiquitin ligases ubiquitinate target proteins	Leaf	R-HSA-392499	Metabolism of proteins
R-HSA-8951664	Neddylation	Leaf	R-HSA-392499	Metabolism of proteins
R-HSA-9033241	Peroxisomal protein import	Internal node	R-HSA-9609507	Protein localization
R-HSA-936440	Negative regulators of DDX58/IFIH1 signaling	Leaf	R-HSA-168256	Immune System
R-HSA-937041	IKK complex recruitment mediated by RIP1	Leaf	R-HSA-168256	Immune System
R-HSA-9687136	Aberrant regulation of mitotic exit in cancer due to RB1 defects	Leaf	R-HSA-1643685	Disease
R-HSA-9705462	Inactivation of CSF3 (G-CSF) signaling	Leaf	R-HSA-168256	Immune System
R-HSA-983168	Antigen processing: Ubiquitination & Proteasome degradation	Leaf	R-HSA-168256	Immune System

Subcellular location

Location	ECO term	Pubmed
Cytoplasm	ECO:0000269	PubMed:18845142

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Tissue	Cell type	Expression level	Reliability
adipose tissue	adipocytes	Medium	Approved
bone marrow	hematopoietic cells	Medium	Approved
breast	adipocytes	Low	Approved
breast	glandular cells	Medium	Approved
breast	myoepithelial cells	Low	Approved
caudate	neuronal cells	Low	Approved
cerebellum	cells in granular layer	Low	Approved
cerebral cortex	neuronal cells	Low	Approved
cerebral cortex	neuropil	Low	Approved
cervix	glandular cells	Low	Approved
colon	glandular cells	Medium	Approved
endometrium 1	glandular cells	Low	Approved
endometrium 2	glandular cells	Low	Approved
epididymis	glandular cells	Low	Approved
fallopian tube	glandular cells	Medium	Approved
gallbladder	glandular cells	Medium	Approved
hippocampus	glial cells	Low	Approved
hippocampus	neuronal cells	Medium	Approved
kidney	cells in tubules	Medium	Approved
liver	cholangiocytes	Medium	Approved
lung	macrophages	Medium	Approved
lymph node	germinal center cells	Low	Approved
lymph node	non-germinal center cells	Low	Approved
oral mucosa	squamous epithelial cells	Low	Approved
ovary	follicle cells	Low	Approved
pancreas	pancreatic endocrine cells	Low	Approved
parathyroid gland	glandular cells	Low	Approved
placenta	decidual cells	Medium	Approved
placenta	trophoblastic cells	Medium	Approved
prostate	glandular cells	Low	Approved
rectum	glandular cells	Low	Approved
seminal vesicle	glandular cells	Medium	Approved
skeletal muscle	myocytes	Medium	Approved
skin 1	Langerhans	Medium	Approved
skin 1	fibroblasts	Medium	Approved
skin 1	keratinocytes	Medium	Approved
skin 1	melanocytes	Low	Approved
skin 2	epidermal cells	Low	Approved
soft tissue 1	fibroblasts	Low	Approved
soft tissue 1	peripheral nerve	Low	Approved
soft tissue 2	fibroblasts	Low	Approved
spleen	cells in white pulp	Medium	Approved
stomach 1	glandular cells	Low	Approved
stomach 2	glandular cells	Low	Approved
testis	Leydig cells	Low	Approved
testis	cells in seminiferous ducts	Low	Approved
thyroid gland	glandular cells	Low	Approved
tonsil	germinal center cells	Low	Approved
tonsil	non-germinal center cells	Low	Approved
urinary bladder	urothelial cells	Medium	Approved

Summary of P51668

Gene: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A
Protein: Ubiquitin-conjugating enzyme E2 D1

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Summary of P51668

Gene: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A Protein: Ubiquitin-conjugating enzyme E2 D1

Structure

GO term

InterPro / Pfam

Reactome

Subcellular location

Interactor | Variant | Drug

Phenotype

Tissue and cell type

Disease

Gene: UBE2D1, SFT, UBC5A, UBCH5, UBCH5A
Protein: Ubiquitin-conjugating enzyme E2 D1