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Protein

Ubiquitin D

Gene

Ubd

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Ubiquitin-like protein modifier which can be covalently attached to target protein and subsequently leads to their degradation by the 26S proteasome, in a NUB1L-dependent manner. Probably functions as a survival factor. Promotes the expression of the proteasome subunit beta type-9 (PSMB9/LMP2). Regulates TNF-alpha-induced and LPS-mediated activation of the central mediator of innate immunity NF-kappa-B by promoting TNF-alpha-mediated proteasomal degradation of ubiquitinated-I-kappa-B-alpha. Required for TNF-alpha-induced p65 nuclear translocation in renal tubular epithelial cells (RTECs). May be involved in dendritic cell (DC) maturation, the process by which immature dendritic cells differentiate into fully competent antigen-presenting cells that initiate T-cell responses. Mediates mitotic non-disjunction and chromosome instability, in long-term in vitro culture and cancers, by abbreviating mitotic phase and impairing the kinetochore localization of MAD2L1 during the prometaphase stage of the cell cycle. May be involved in the formation of aggresomes when proteasome is saturated or impaired. Mediates apoptosis in a caspase-dependent manner, especially in renal epithelium and tubular cells during renal diseases (By similarity).By similarity

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei160 – 1612Activation by thioester intermediate formation with UBA6By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Ubl conjugation pathway

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin D
Alternative name(s):
Diubiquitin
Ubiquitin-like protein FAT10
Gene namesi
Name:Ubd
Synonyms:Fat10
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Unplaced

Organism-specific databases

RGDi69418. Ubd.

Subcellular locationi

  • Nucleus By similarity
  • Cytoplasm By similarity

  • Note: Accumulates in aggresomes under proteasome inhibition conditions.By similarity

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 161161Ubiquitin DPRO_0000114895Add
BLAST

Post-translational modificationi

Can be acetylated.By similarity

Keywords - PTMi

Acetylation

Proteomic databases

PaxDbiQ921A3.
PRIDEiQ921A3.

PTM databases

PhosphoSiteiQ921A3.

Expressioni

Inductioni

Possible cell-cycle regulation with highest expression during the S-phase (at protein level). Probably rapidly degraded by the proteasome.

Interactioni

Subunit structurei

Interact directly with the 26S proteasome. The interaction with NUB1L vie the N-terminal ubiquitin domain facilitates the linking of UBD-conjugated target protein to the proteasome complex and accelerates its own degradation and that of its conjugates. Interacts with the spindle checkpoint protein MAD2L1 during mitosis. Present in aggresomes of proteasome inhibited cells. Interacts with HDAC6 under proteasome impairment conditions. Forms a thioester with UBA6 in cells stimulated with tumor necrosis factor-alpha (TNFa) and interferon-gamma (IFNg) (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000000995.

Structurei

3D structure databases

ProteinModelPortaliQ921A3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 7775Ubiquitin-like 1PROSITE-ProRule annotationAdd
BLAST
Domaini86 – 15974Ubiquitin-like 2PROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 2 ubiquitin-like domains.PROSITE-ProRule annotation

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
HOGENOMiHOG000134446.
HOVERGENiHBG101094.
InParanoidiQ921A3.
KOiK12157.
OrthoDBiEOG75TMDT.
PhylomeDBiQ921A3.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 2 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 2 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 2 hits.
PROSITEiPS50053. UBIQUITIN_2. 2 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q921A3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MASCVCVVRS EQWPLMTFDT TMSDKVKKIN EHIRSQTKVS VQDQILLLDS
60 70 80 90 100
KILKPHRALS SYGIDKENTI HLTLKVVKPS DEELPLSLVE SGDEGQRHLL
110 120 130 140 150
RVRRSSSVAQ VKEMIENVTA VPPKKQIVNC NGKRLEDGKI MADYNIKSGS
160
LLFLTAHCIG G
Length:161
Mass (Da):17,983
Last modified:December 1, 2001 - v1
Checksum:i5BAB9D199885A0D8
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti9 – 91R → H in CAE84074 (PubMed:15060004).Curated
Sequence conflicti127 – 1271I → F in CAE84074 (PubMed:15060004).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ312394 mRNA. Translation: CAC42833.1.
BX883052 Genomic DNA. Translation: CAE84074.1.
RefSeqiNP_445751.2. NM_053299.2.
UniGeneiRn.18473.

Genome annotation databases

GeneIDi29168.
KEGGirno:29168.
UCSCiRGD:69418. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ312394 mRNA. Translation: CAC42833.1.
BX883052 Genomic DNA. Translation: CAE84074.1.
RefSeqiNP_445751.2. NM_053299.2.
UniGeneiRn.18473.

3D structure databases

ProteinModelPortaliQ921A3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000000995.

PTM databases

PhosphoSiteiQ921A3.

Proteomic databases

PaxDbiQ921A3.
PRIDEiQ921A3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi29168.
KEGGirno:29168.
UCSCiRGD:69418. rat.

Organism-specific databases

CTDi10537.
RGDi69418. Ubd.

Phylogenomic databases

eggNOGiKOG0001. Eukaryota.
COG5272. LUCA.
HOGENOMiHOG000134446.
HOVERGENiHBG101094.
InParanoidiQ921A3.
KOiK12157.
OrthoDBiEOG75TMDT.
PhylomeDBiQ921A3.

Miscellaneous databases

NextBioi608220.
PROiQ921A3.

Family and domain databases

InterProiIPR019956. Ubiquitin.
IPR029071. Ubiquitin-rel_dom.
IPR000626. Ubiquitin_dom.
[Graphical view]
PfamiPF00240. ubiquitin. 2 hits.
[Graphical view]
PRINTSiPR00348. UBIQUITIN.
SMARTiSM00213. UBQ. 2 hits.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 2 hits.
PROSITEiPS50053. UBIQUITIN_2. 2 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Characterization of the rat Ubd gene."
    Walter L.
    Submitted (JUN-2001) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  2. "The genomic sequence and comparative analysis of the rat major histocompatibility complex."
    Hurt P., Walter L., Sudbrak R., Klages S., Mueller I., Shiina T., Inoko H., Lehrach H., Guenther E., Reinhardt R., Himmelbauer H.
    Genome Res. 14:631-639(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Brown Norway.

Entry informationi

Entry nameiUBD_RAT
AccessioniPrimary (citable) accession number: Q921A3
Secondary accession number(s): Q6MFX3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 13, 2004
Last sequence update: December 1, 2001
Last modified: November 11, 2015
This is version 85 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.