UBC (ubiquitin C)

Gene

• Entrez ID: 7316
• Gene name: Ubiquitin C
• Gene symbol: UBC
• Synonyms: HMG20
• Chromosome: 12
• Chromosome location: 12q24.31
• Summary: This gene represents a ubiquitin gene, ubiquitin C. The encoded protein is a polyubiquitin precursor. Conjugation of ubiquitin monomers or polymers can lead to various effects within a cell, depending on the residues to which ubiquitin is conjugated. Ubiquitination has been associated with protein degradation, DNA repair, cell cycle regulation, kinase modification, endocytosis, and regulation of other cell signaling pathways. [provided by RefSeq, Aug 2010]

miRNA

miRTarBase ID	miRNA	Experiments	Reference
MIRT030628	hsa-miR-24-3p	qRT-PCR	19748357
MIRT037302	hsa-miR-877-5p	CLASH	23622248
MIRT038409	hsa-miR-296-3p	CLASH	23622248
MIRT039075	hsa-miR-769-3p	CLASH	23622248
MIRT039711	hsa-miR-615-3p	CLASH	23622248
MIRT042909	hsa-miR-324-3p	CLASH	23622248
MIRT046896	hsa-miR-221-3p	CLASH	23622248
MIRT050710	hsa-miR-18a-5p	CLASH	23622248
MIRT439366	hsa-miR-20a-5p	HITS-CLIP	22473208
MIRT439366	hsa-miR-20a-5p	PAR-CLIP	26701625
MIRT439367	hsa-miR-106b-5p	HITS-CLIP	22473208
MIRT439367	hsa-miR-106b-5p	PAR-CLIP	26701625
MIRT726199	hsa-miR-519d-3p	HITS-CLIP	22473208
MIRT726199	hsa-miR-519d-3p	PAR-CLIP	26701625
MIRT726200	hsa-miR-20b-5p	HITS-CLIP	22473208
MIRT726200	hsa-miR-20b-5p	PAR-CLIP	26701625
MIRT726201	hsa-miR-93-5p	HITS-CLIP	22473208
MIRT726201	hsa-miR-93-5p	PAR-CLIP	26701625
MIRT726202	hsa-miR-17-5p	HITS-CLIP	22473208
MIRT726202	hsa-miR-17-5p	PAR-CLIP	26701625
MIRT735821	hsa-miR-106a-3p	PAR-CLIP	26701625
MIRT735830	hsa-miR-106a-5p	PAR-CLIP	26701625
MIRT737295	hsa-miR-130a-3p	PAR-CLIP	26701625
MIRT737304	hsa-miR-130b-3p	PAR-CLIP	26701625
MIRT739615	hsa-miR-301a-3p	PAR-CLIP	26701625
MIRT739625	hsa-miR-301b-3p	PAR-CLIP	26701625
MIRT742077	hsa-miR-3666	PAR-CLIP	26701625
MIRT743790	hsa-miR-4295	PAR-CLIP	26701625
MIRT745575	hsa-miR-450a-1-3p	PAR-CLIP	26701625
MIRT746144	hsa-miR-454-3p	PAR-CLIP	26701625
MIRT749157	hsa-miR-488-3p	PAR-CLIP	26701625
MIRT749725	hsa-miR-510-3p	PAR-CLIP	26701625
MIRT750118	hsa-miR-519a-3p	PAR-CLIP	26701625
MIRT750136	hsa-miR-519b-3p	PAR-CLIP	26701625
MIRT750154	hsa-miR-519c-3p	PAR-CLIP	26701625
MIRT750324	hsa-miR-526b-3p	PAR-CLIP	26701625
MIRT751159	hsa-miR-5681a	PAR-CLIP	26701625
MIRT753266	hsa-miR-651-3p	PAR-CLIP	26701625
MIRT753422	hsa-miR-653-5p	PAR-CLIP	26701625
MIRT753727	hsa-miR-6716-5p	PAR-CLIP	26701625
MIRT753981	hsa-miR-6730-5p	PAR-CLIP	26701625
MIRT783285	hsa-miR-1273a	HITS-CLIP	27418678
MIRT783340	hsa-miR-1273g-3p	HITS-CLIP	27418678
MIRT785996	hsa-miR-4486	HITS-CLIP	27418678
MIRT786298	hsa-miR-4649-5p	HITS-CLIP	27418678
MIRT786802	hsa-miR-4793-3p	HITS-CLIP	27418678
MIRT787061	hsa-miR-508-5p	HITS-CLIP	27418678
MIRT788304	hsa-miR-6512-3p	HITS-CLIP	27418678
MIRT788417	hsa-miR-661	HITS-CLIP	27418678
MIRT788466	hsa-miR-6720-5p	HITS-CLIP	27418678
MIRT788480	hsa-miR-6729-5p	HITS-CLIP	27418678
MIRT789072	hsa-miR-6849-3p	HITS-CLIP	27418678
MIRT789527	hsa-miR-766-3p	HITS-CLIP	27418678
MIRT789549	hsa-miR-7703	HITS-CLIP	27418678
MIRT789990	hsa-miR-939-3p	HITS-CLIP	27418678

Transcription factors

Transcription factor	Regulation	Reference
SP1	Unknown	19733223
SP3	Unknown	19733223

Gene ontology (GO)

GO ID	Ontology	Definition	Evidence	Reference
GO:0000122	Process	Negative regulation of transcription by RNA polymerase II	TAS
GO:0000187	Process	Activation of MAPK activity	TAS
GO:0000209	Process	Protein polyubiquitination	TAS
GO:0000715	Process	Nucleotide-excision repair, DNA damage recognition	TAS
GO:0000717	Process	Nucleotide-excision repair, DNA duplex unwinding	TAS
GO:0002020	Function	Protease binding	IPI	21185309
GO:0002755	Process	MyD88-dependent toll-like receptor signaling pathway	TAS
GO:0002756	Process	MyD88-independent toll-like receptor signaling pathway	TAS
GO:0003723	Function	RNA binding	HDA	22681889
GO:0005515	Function	Protein binding	IPI	8702753, 16256071, 16424905, 16482222, 16763556, 16810318, 16845370, 16874300, 16874301, 16936636, 16996503, 17006543, 17028573, 17067581, 17070805, 17110928, 17139261, 17159902, 17170702, 17183367, 17255943, 17268548, 17290220, 17304240, 17318174, 17318178, 17320083, 17363902, 1736
GO:0005615	Component	Extracellular space	HDA	16502470
GO:0005634	Component	Nucleus	HDA	21630459
GO:0005634	Component	Nucleus	IBA	21873635
GO:0005654	Component	Nucleoplasm	TAS
GO:0005737	Component	Cytoplasm	IBA	21873635
GO:0005741	Component	Mitochondrial outer membrane	TAS
GO:0005789	Component	Endoplasmic reticulum membrane	TAS
GO:0005829	Component	Cytosol	TAS
GO:0005886	Component	Plasma membrane	TAS
GO:0006283	Process	Transcription-coupled nucleotide-excision repair	TAS
GO:0006294	Process	Nucleotide-excision repair, preincision complex assembly	TAS
GO:0006296	Process	Nucleotide-excision repair, DNA incision, 5'-to lesion	TAS
GO:0006297	Process	Nucleotide-excision repair, DNA gap filling	TAS
GO:0006625	Process	Protein targeting to peroxisome	TAS
GO:0007179	Process	Transforming growth factor beta receptor signaling pathway	TAS
GO:0007249	Process	I-kappaB kinase/NF-kappaB signaling	TAS
GO:0007254	Process	JNK cascade	TAS
GO:0010008	Component	Endosome membrane	TAS
GO:0016055	Process	Wnt signaling pathway	TAS
GO:0016197	Process	Endosomal transport	TAS
GO:0016567	Process	Protein ubiquitination	IBA	21873635
GO:0016567	Process	Protein ubiquitination	TAS
GO:0016579	Process	Protein deubiquitination	TAS
GO:0019058	Process	Viral life cycle	TAS
GO:0019068	Process	Virion assembly	TAS
GO:0019221	Process	Cytokine-mediated signaling pathway	TAS
GO:0019941	Process	Modification-dependent protein catabolic process	IBA	21873635
GO:0019985	Process	Translesion synthesis	TAS
GO:0030512	Process	Negative regulation of transforming growth factor beta receptor signaling pathway	TAS
GO:0030666	Component	Endocytic vesicle membrane	TAS
GO:0031145	Process	Anaphase-promoting complex-dependent catabolic process	TAS
GO:0031386	Function	Protein tag	IBA	21873635
GO:0031625	Function	Ubiquitin protein ligase binding	IBA	21873635
GO:0031982	Component	Vesicle	HDA	19190083
GO:0033683	Process	Nucleotide-excision repair, DNA incision	TAS
GO:0035666	Process	TRIF-dependent toll-like receptor signaling pathway	TAS
GO:0036297	Process	Interstrand cross-link repair	TAS
GO:0042276	Process	Error-prone translesion synthesis	TAS
GO:0042769	Process	DNA damage response, detection of DNA damage	TAS
GO:0043065	Process	Positive regulation of apoptotic process	TAS
GO:0043066	Process	Negative regulation of apoptotic process	TAS
GO:0043488	Process	Regulation of mRNA stability	TAS
GO:0043657	Component	Host cell	IEA
GO:0044267	Process	Cellular protein metabolic process	TAS
GO:0045944	Process	Positive regulation of transcription by RNA polymerase II	TAS
GO:0051092	Process	Positive regulation of NF-kappaB transcription factor activity	TAS
GO:0051403	Process	Stress-activated MAPK cascade	TAS
GO:0055085	Process	Transmembrane transport	TAS
GO:0061024	Process	Membrane organization	TAS
GO:0061418	Process	Regulation of transcription from RNA polymerase II promoter in response to hypoxia	TAS
GO:0070062	Component	Extracellular exosome	HDA	23533145
GO:0070423	Process	Nucleotide-binding oligomerization domain containing signaling pathway	TAS
GO:0070498	Process	Interleukin-1-mediated signaling pathway	TAS
GO:0070911	Process	Global genome nucleotide-excision repair	TAS
GO:0070987	Process	Error-free translesion synthesis	TAS
GO:0075733	Process	Intracellular transport of virus	TAS

Other IDs

• MIM: 191340
• HGNC: 12468
• e!Ensembl: ENSG00000150991

Protein

• UniProt ID: P0CG48
• Protein name: Polyubiquitin-C [Cleaved into: Ubiquitin]
• Protein function: [Ubiquitin]: Exists either covalently attached to another protein, or free (unanchored). When covalently bound, it is conjugated to target proteins via an isopeptide bond either as a monomer (monoubiquitin), a polymer linked via different Lys residues of the ubiquitin (polyubiquitin chains) or a linear polymer linked via the initiator Met of the ubiquitin (linear polyubiquitin chains). Polyubiquitin chains, when attached to a target protein, have different functions depending on the Lys residue of the ubiquitin that is linked: Lys-6-linked may be involved in DNA repair; Lys-11-linked is involved in ERAD (endoplasmic reticulum-associated degradation) and in cell-cycle regulation; Lys-29-linked is involved in lysosomal degradation; Lys-33-linked is involved in kinase modification; Lys-48-linked is involved in protein degradation via the proteasome; Lys-63-linked is involved in endocytosis, DNA-damage responses as well as in signaling processes leading to activation of the transcription factor NF-kappa-B. Linear polymer chains formed via attachment by the initiator Met lead to cell signaling. Ubiquitin is usually conjugated to Lys residues of target proteins, however, in rare cases, conjugation to Cys or Ser residues has been observed. When polyubiquitin is free (unanchored-polyubiquitin), it also has distinct roles, such as in activation of protein kinases, and in signaling.
• PDB: 1C3T, 1CMX, 1D3Z, 1F9J, 1FXT, 1G6J, 1GJZ, 1NBF, 1OGW, 1Q5W, 1S1Q, 1SIF, 1TBE, 1UBI, 1UBQ, 1UD7, 1XD3, 1XQQ, 1YX5, 1YX6, 1ZGU, 1ZO6, 2AYO, 2BGF, 2DEN, 2FUH, 2G45, 2GBJ, 2GBK, 2GBM, 2GBN, 2GBR, 2GMI, 2HTH, 2IBI, 2J7Q, 2JF5, 2JRI, 2JY6, 2JZZ, 2K25, 2K6D, 2K8B, 2K8C, 2KDF, 2KHW, 2KJH, 2KLG, 2KN5, 2KX0, 2L3Z
• Family and domains:

  Pfam

  Accession	ID	Position in sequence	Description	Type
  PF00240	ubiquitin	3 → 74	Ubiquitin family	Domain
  PF00240	ubiquitin	79 → 150	Ubiquitin family	Domain
  PF00240	ubiquitin	155 → 226	Ubiquitin family	Domain
  PF00240	ubiquitin	231 → 302	Ubiquitin family	Domain
  PF00240	ubiquitin	307 → 378	Ubiquitin family	Domain
  PF00240	ubiquitin	383 → 454	Ubiquitin family	Domain
  PF00240	ubiquitin	459 → 530	Ubiquitin family	Domain
  PF00240	ubiquitin	535 → 606	Ubiquitin family	Domain
  PF00240	ubiquitin	611 → 682	Ubiquitin family	Domain

• Sequence:

  MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYN
  IQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLI
  FAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKA
  KIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKT
  ITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLR
  LRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTL
  SDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQ
  QRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIE
  NVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTL
  TGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLH
  LVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLED
  GRTLSDYNIQKESTLHLVLRLRGGV

• Sequence length: 685