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Protein

Polyubiquitin-C

Gene

UBC

Organism
Bos taurus (Bovine)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

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 (By similarity).By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei54Activating enzyme1
Sitei68Essential for function1
Binding sitei72Activating enzyme1

Names & Taxonomyi

Protein namesi
Recommended name:
Polyubiquitin-C
Cleaved into the following 2 chains:
Gene namesi
Name:UBC
OrganismiBos taurus (Bovine)
Taxonomic identifieri9913 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaLaurasiatheriaCetartiodactylaRuminantiaPecoraBovidaeBovinaeBos
Proteomesi
  • UP000009136 Componenti: Unplaced

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001147921 – 76Ubiquitin-relatedAdd BLAST76
ChainiPRO_000039614577 – 152UbiquitinAdd BLAST76
ChainiPRO_0000396146153 – 228UbiquitinAdd BLAST76
ChainiPRO_0000396147229 – 304UbiquitinAdd BLAST76
ChainiPRO_0000396148305 – 380UbiquitinAdd BLAST76
ChainiPRO_0000396149381 – 456UbiquitinAdd BLAST76
ChainiPRO_0000396150457 – 532UbiquitinAdd BLAST76
ChainiPRO_0000396151533 – 608UbiquitinAdd BLAST76
ChainiPRO_0000396152609 – 684UbiquitinAdd BLAST76
PropeptideiPRO_0000396153685 – 6906

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki48Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)
Modified residuei65Phosphoserine; by PINK1By similarity1
Cross-linki76Glycyl lysine isopeptide (Gly-Lys) (interchain with K-? in acceptor proteins)
Cross-linki82Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki87Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki105Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki124Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Cross-linki139Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
Modified residuei141PhosphoserineBy similarity1

Post-translational modificationi

Ubiquitin: Phosphorylated at Ser-65 by PINK1 during mitophagy. Phosphorylated ubiquitin specifically binds and activates parkin (PARK2), triggering mitophagy. Phosphorylation does not affect E1-mediated E2 charging of ubiquitin but affects discharging of E2 enzymes to form polyubiquitin chains. It also affects deubiquitination by deubiquitinase enzymes such as USP30.By similarity

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiP0CH28.
PRIDEiP0CH28.

Interactioni

Protein-protein interaction databases

BioGridi160681. 16 interactors.
STRINGi9913.ENSBTAP00000022919.

Structurei

Secondary structure

1690
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi610 – 615Combined sources6
Beta strandi616 – 618Combined sources3
Beta strandi620 – 624Combined sources5
Helixi631 – 642Combined sources12
Helixi646 – 648Combined sources3
Beta strandi649 – 653Combined sources5
Beta strandi660 – 663Combined sources4
Helixi665 – 667Combined sources3
Beta strandi674 – 679Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1AARX-ray2.30A/B1-76[»]
1E0QNMR-A1-17[»]
1P3QX-ray1.70U/V1-76[»]
1UZXX-ray1.85B1-76[»]
1V80NMR-A1-76[»]
1V81NMR-A1-76[»]
1WR6X-ray2.60E/F/G/H1-76[»]
1WRDX-ray1.75B1-76[»]
1YD8X-ray2.80U/V1-76[»]
2C7MX-ray2.40B1-76[»]
2C7NX-ray2.10B/D/F/H/J/L1-76[»]
2D3GX-ray1.70A/B1-76[»]
2DX5X-ray3.35B1-76[»]
2FIDX-ray2.80A1-76[»]
2FIFX-ray2.49A/C/E1-76[»]
2HD5X-ray1.85B1-76[»]
2OOBX-ray1.90B1-76[»]
2QHOX-ray1.85A/C/E/G1-76[»]
2WWZX-ray1.40A/B1-76[»]
2WX0X-ray2.40A/B/E/F1-76[»]
2WX1X-ray3.00A/B1-76[»]
2XBBX-ray2.68C/D1-76[»]
2ZCCX-ray1.40A/B/C1-76[»]
3H1UX-ray3.00A/B1-76[»]
3M3JX-ray1.60A/B/C/D/E/F1-76[»]
4BBNX-ray2.51C1-76[»]
F1-75[»]
4XKHX-ray3.00A/B/D/F/G/I1-76[»]
4XYZX-ray1.65A/B609-684[»]
ProteinModelPortaliP0CH28.
SMRiP0CH28.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0CH28.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 76Ubiquitin-like 1PROSITE-ProRule annotationAdd BLAST76
Domaini77 – 152Ubiquitin-like 2PROSITE-ProRule annotationAdd BLAST76
Domaini153 – 228Ubiquitin-like 3PROSITE-ProRule annotationAdd BLAST76
Domaini229 – 304Ubiquitin-like 4PROSITE-ProRule annotationAdd BLAST76
Domaini305 – 380Ubiquitin-like 5PROSITE-ProRule annotationAdd BLAST76
Domaini381 – 456Ubiquitin-like 6PROSITE-ProRule annotationAdd BLAST76
Domaini457 – 532Ubiquitin-like 7PROSITE-ProRule annotationAdd BLAST76
Domaini533 – 608Ubiquitin-like 8PROSITE-ProRule annotationAdd BLAST76
Domaini609 – 684Ubiquitin-like 9PROSITE-ProRule annotationAdd BLAST76

Sequence similaritiesi

Belongs to the ubiquitin family.Curated
Contains 9 ubiquitin-like domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
InParanoidiP0CH28.
KOiK08770.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 9 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 9 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 9 hits.
PROSITEiPS00299. UBIQUITIN_1. 9 hits.
PS50053. UBIQUITIN_2. 9 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0CH28-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MQIFVKTLTG KTITLEVEPS DTIENVKGKI QEKEGIPPDQ QRLIFAGKQL
60 70 80 90 100
EDGRTLSDYN IQKESTLHLV LRLRGGMQIF VKTLTGKTIT LEVEPSDTIE
110 120 130 140 150
NVKAKIQDKE GIPPDQQRLI FAGKQLEDGR TLSDYNIQKE STLHLVLRLR
160 170 180 190 200
GGMQIFVKTL TGKTITLEVE PSDTIENVKA KIQDKEGIPP DQQRLIFAGK
210 220 230 240 250
QLEDGRTLSD YNIQKESTLH LVLRLRGGMQ IFVKTLTGKT ITLEVEPSDT
260 270 280 290 300
IENVKAKIQD KEGIPPDQQR LIFAGKQLED GRTLSDYNIQ KESTLHLVLR
310 320 330 340 350
LRGGMQIFVK TLTGKTITLE VEPSDTIENV KAKIQDKEGI PPDQQRLIFA
360 370 380 390 400
GKQLEDGRTL SDYNIQKEST LHLVLRLRGG MQIFVKTLTG KTITLEVEPS
410 420 430 440 450
DTIENVKAKI QDKEGIPPDQ QRLIFAGKQL EDGRTLSDYN IQKESTLHLV
460 470 480 490 500
LRLRGGMQIF VKTLTGKTIT LEVEPSDTIE NVKAKIQDKE GIPPDQQRLI
510 520 530 540 550
FAGKQLEDGR TLSDYNIQKE STLHLVLRLR GGMQIFVKTL TGKTITLEVE
560 570 580 590 600
PSDTIENVKA KIQDKEGIPP DQQRLIFAGK QLEDGRTLSD YNIQKESTLH
610 620 630 640 650
LVLRLRGGMQ IFVKTLTGKT ITLEVEPSDT IENVKAKIQD KEGIPPDQQR
660 670 680 690
LIFAGKQLED GRTLSDYNIQ KESTLHLVLR LRGGVLSSPF
Length:690
Mass (Da):77,570
Last modified:August 10, 2010 - v1
Checksum:i9C226467B8A4FBCA
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti609 – 614MQIFVK → VLSSPF in AAA30719 (PubMed:1846490).Curated6

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFC03038308 Genomic DNA. No translation available.
M62428 mRNA. Translation: AAA30719.1.
PIRiA90388. UQBO.
RefSeqiNP_001193236.1. NM_001206307.1.
UniGeneiBt.5070.

Genome annotation databases

GeneIDi444874.
KEGGibta:444874.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AAFC03038308 Genomic DNA. No translation available.
M62428 mRNA. Translation: AAA30719.1.
PIRiA90388. UQBO.
RefSeqiNP_001193236.1. NM_001206307.1.
UniGeneiBt.5070.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1AARX-ray2.30A/B1-76[»]
1E0QNMR-A1-17[»]
1P3QX-ray1.70U/V1-76[»]
1UZXX-ray1.85B1-76[»]
1V80NMR-A1-76[»]
1V81NMR-A1-76[»]
1WR6X-ray2.60E/F/G/H1-76[»]
1WRDX-ray1.75B1-76[»]
1YD8X-ray2.80U/V1-76[»]
2C7MX-ray2.40B1-76[»]
2C7NX-ray2.10B/D/F/H/J/L1-76[»]
2D3GX-ray1.70A/B1-76[»]
2DX5X-ray3.35B1-76[»]
2FIDX-ray2.80A1-76[»]
2FIFX-ray2.49A/C/E1-76[»]
2HD5X-ray1.85B1-76[»]
2OOBX-ray1.90B1-76[»]
2QHOX-ray1.85A/C/E/G1-76[»]
2WWZX-ray1.40A/B1-76[»]
2WX0X-ray2.40A/B/E/F1-76[»]
2WX1X-ray3.00A/B1-76[»]
2XBBX-ray2.68C/D1-76[»]
2ZCCX-ray1.40A/B/C1-76[»]
3H1UX-ray3.00A/B1-76[»]
3M3JX-ray1.60A/B/C/D/E/F1-76[»]
4BBNX-ray2.51C1-76[»]
F1-75[»]
4XKHX-ray3.00A/B/D/F/G/I1-76[»]
4XYZX-ray1.65A/B609-684[»]
ProteinModelPortaliP0CH28.
SMRiP0CH28.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi160681. 16 interactors.
STRINGi9913.ENSBTAP00000022919.

Proteomic databases

PaxDbiP0CH28.
PRIDEiP0CH28.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi444874.
KEGGibta:444874.

Organism-specific databases

CTDi7316.

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
InParanoidiP0CH28.
KOiK08770.

Miscellaneous databases

EvolutionaryTraceiP0CH28.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR019954. Ubiquitin_CS.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 9 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 9 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 9 hits.
PROSITEiPS00299. UBIQUITIN_1. 9 hits.
PS50053. UBIQUITIN_2. 9 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUBC_BOVIN
AccessioniPrimary (citable) accession number: P0CH28
Secondary accession number(s): O97577
, P02248, P02249, P02250, P0CG52, P62990, P80169, Q01235, Q24K23, Q28169, Q28170, Q29120, Q3T0V5, Q3ZCE3, Q862C1, Q862F4, Q862M4, Q862T5, Q862X8, Q91887, Q91888
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 10, 2010
Last sequence update: August 10, 2010
Last modified: November 2, 2016
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Miscellaneous

Ubiquitin is encoded by 4 different genes. Uba52 and Rps27a genes code for a single copy of ubiquitin fused to the ribosomal proteins L40 and S27a, respectively. UBB and UBC genes code for a polyubiquitin precursor with exact head to tail repeats, the number of repeats differ between species and strains.
For the sake of clarity sequence features are annotated only for the first chain, and are not repeated for each of the following chains.

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.