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Aliases for UBE2D3 Gene

Aliases for UBE2D3 Gene

  • Ubiquitin-Conjugating Enzyme E2D 3 2 3
  • Ubiquitin-Conjugating Enzyme E2D 3 (Homologous To Yeast UBC4/5) 2 3
  • Ubiquitin-Conjugating Enzyme E2D 3 (UBC4/5 Homolog, Yeast) 2 3
  • Ubiquitin-Conjugating Enzyme E2-17 KDa 3 3 4
  • Ubiquitin-Conjugating Enzyme E2(17)KB 3 3 4
  • Ubiquitin Carrier Protein D3 3 4
  • Ubiquitin-Protein Ligase D3 3 4
  • EC 6.3.2.19 4 64
  • UBCH5C 3 4
  • Ubiquitin-Conjugating Enzyme E2 D3 3
  • E2(17)KB 3 3
  • E2(17)KB3 3
  • PRO2116 3
  • UBC4/5 3
  • UBC5C 4

External Ids for UBE2D3 Gene

Summaries for UBE2D3 Gene

Entrez Gene Summary for UBE2D3 Gene

  • The modification of proteins with ubiquitin is an important cellular mechanism for targeting abnormal or short-lived proteins for degradation. Ubiquitination involves at least three classes of enzymes: ubiquitin-activating enzymes, or E1s, ubiquitin-conjugating enzymes, or E2s, and ubiquitin-protein ligases, or E3s. This gene encodes a member of the E2 ubiquitin-conjugating enzyme family. This enzyme functions in the ubiquitination of the tumor-suppressor protein p53, which is induced by an E3 ubiquitin-protein ligase. Multiple spliced transcript variants have been found for this gene, but the full-length nature of some variants has not been determined. [provided by RefSeq, Jul 2008]

GeneCards Summary for UBE2D3 Gene

UBE2D3 (Ubiquitin-Conjugating Enzyme E2D 3) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Disease. GO annotations related to this gene include ubiquitin-protein transferase activity. An important paralog of this gene is UBE2L6.

UniProtKB/Swiss-Prot for UBE2D3 Gene

  • Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro catalyzes Lys-11-, as well as Lys-48-linked polyubiquitination. Cooperates with the E2 CDC34 and the SCF(FBXW11) E3 ligase complex for the polyubiquitination of NFKBIA leading to its subsequent proteasomal degradation. Acts as an initiator E2, priming the phosphorylated NFKBIA target at positions Lys-21 and/or Lys-22 with a monoubiquitin. Ubiquitin chain elongation is then performed by CDC34, building ubiquitin chains from the UBE2D3-primed NFKBIA-linked ubiquitin. Acts also as an initiator E2, in conjunction with RNF8, for the priming of PCNA. Monoubiquitination of PCNA, and its subsequent polyubiquitination, are essential events in the operation of the DNA damage tolerance (DDT) pathway that is activated after DNA damage caused by UV or chemical agents during S-phase. Associates with the BRCA1/BARD1 E3 ligase complex to perform ubiquitination at DNA damage sites following ionizing radiation leading to DNA repair. Targets DAPK3 for ubiquitination which influences promyelocytic leukemia protein nuclear body (PML-NB) formation in the nucleus. In conjunction with the MDM2 and TOPORS E3 ligases, functions ubiquitination of p53/TP53. Supports NRDP1-mediated ubiquitination and degradation of ERBB3 and of BRUCE which triggers apoptosis. In conjunction with the CBL E3 ligase, targets EGFR for polyubiquitination at the plasma membrane as well as during its internalization and transport on endosomes. In conjunction with the STUB1 E3 quality control E3 ligase, ubiquitinates unfolded proteins to catalyze their immediate destruction (By similarity).

Gene Wiki entry for UBE2D3 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for UBE2D3 Gene

Genomics for UBE2D3 Gene

Genomic Location for UBE2D3 Gene

Start:
102,794,383 bp from pter
End:
102,868,896 bp from pter
Size:
74,514 bases
Orientation:
Minus strand

Genomic View for UBE2D3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for UBE2D3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for UBE2D3 Gene

Regulatory Elements for UBE2D3 Gene

Transcription factor binding sites by QIAGEN in the UBE2D3 gene promoter:

Proteins for UBE2D3 Gene

  • Protein details for UBE2D3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P61077-UB2D3_HUMAN
    Recommended name:
    Ubiquitin-conjugating enzyme E2 D3
    Protein Accession:
    P61077
    Secondary Accessions:
    • A6NJ93
    • A6NJB1
    • A6NM99
    • P47986
    • Q6IB88
    • Q6NXS4
    • Q8N924

    Protein attributes for UBE2D3 Gene

    Size:
    147 amino acids
    Molecular mass:
    16687 Da
    Quaternary structure:
    • Interacts with SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complex; when Cullin is neddylated, the interaction between the E2 and the SCF complex is strengthened. Interacts with DAPK3. Interacts with BRCA1; the DNA damage checkpoint promotes the association with BRCA1 after ionizing radiation. Interacts non-covalently with ubiquitin. Interacts with E3 ubiquitin-protein ligase CBLC.

    Three dimensional structures from OCA and Proteopedia for UBE2D3 Gene

    Alternative splice isoforms for UBE2D3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for UBE2D3 Gene

Proteomics data for UBE2D3 Gene at MOPED

Post-translational modifications for UBE2D3 Gene

Domains for UBE2D3 Gene

Gene Families for UBE2D3 Gene

HGNC:
  • UBE2 :Ubiquitin-conjugating enzymes E2

Protein Domains for UBE2D3 Gene

UniProtKB/Swiss-Prot:

UB2D3_HUMAN
Family:
  • Belongs to the ubiquitin-conjugating enzyme family.:
    • P61077
genes like me logo Genes that share domains with UBE2D3: view

Function for UBE2D3 Gene

Molecular function for UBE2D3 Gene

UniProtKB/Swiss-Prot CatalyticActivity: ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine.
UniProtKB/Swiss-Prot Function: Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro catalyzes Lys-11-, as well as Lys-48-linked polyubiquitination. Cooperates with the E2 CDC34 and the SCF(FBXW11) E3 ligase complex for the polyubiquitination of NFKBIA leading to its subsequent proteasomal degradation. Acts as an initiator E2, priming the phosphorylated NFKBIA target at positions Lys-21 and/or Lys-22 with a monoubiquitin. Ubiquitin chain elongation is then performed by CDC34, building ubiquitin chains from the UBE2D3-primed NFKBIA-linked ubiquitin. Acts also as an initiator E2, in conjunction with RNF8, for the priming of PCNA. Monoubiquitination of PCNA, and its subsequent polyubiquitination, are essential events in the operation of the DNA damage tolerance (DDT) pathway that is activated after DNA damage caused by UV or chemical agents during S-phase. Associates with the BRCA1/BARD1 E3 ligase complex to perform ubiquitination at DNA damage sites following ionizing radiation leading to DNA repair. Targets DAPK3 for ubiquitination which influences promyelocytic leukemia protein nuclear body (PML-NB) formation in the nucleus. In conjunction with the MDM2 and TOPORS E3 ligases, functions ubiquitination of p53/TP53. Supports NRDP1-mediated ubiquitination and degradation of ERBB3 and of BRUCE which triggers apoptosis. In conjunction with the CBL E3 ligase, targets EGFR for polyubiquitination at the plasma membrane as well as during its internalization and transport on endosomes. In conjunction with the STUB1 E3 quality control E3 ligase, ubiquitinates unfolded proteins to catalyze their immediate destruction (By similarity).

Enzyme Numbers (IUBMB) for UBE2D3 Gene

Gene Ontology (GO) - Molecular Function for UBE2D3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IDA 14765125
GO:0005515 protein binding IPI 14667819
GO:0005524 ATP binding IEA --
GO:0016874 ligase activity IEA --
GO:0016881 acid-amino acid ligase activity --
genes like me logo Genes that share ontologies with UBE2D3: view

No data available for Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for UBE2D3 Gene

Localization for UBE2D3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for UBE2D3 Gene

Cell membrane; Peripheral membrane protein. Endosome membrane; Peripheral membrane protein.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for UBE2D3 Gene COMPARTMENTS Subcellular localization image for UBE2D3 gene
Compartment Confidence
endosome 5
plasma membrane 5
cytosol 4
nucleus 4
extracellular 1

Gene Ontology (GO) - Cellular Components for UBE2D3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm TAS --
GO:0005768 endosome --
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane IEA --
GO:0010008 endosome membrane IEA --
genes like me logo Genes that share ontologies with UBE2D3: view

Pathways for UBE2D3 Gene

SuperPathways for UBE2D3 Gene

genes like me logo Genes that share pathways with UBE2D3: view

UniProtKB/Swiss-Prot P61077-UB2D3_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for UBE2D3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter TAS --
GO:0000209 protein polyubiquitination IDA 14765125
GO:0002224 toll-like receptor signaling pathway TAS --
GO:0002756 MyD88-independent toll-like receptor signaling pathway TAS --
GO:0006281 DNA repair IEA --
genes like me logo Genes that share ontologies with UBE2D3: view

Compounds for UBE2D3 Gene

(4) HMDB Compounds for UBE2D3 Gene

Compound Synonyms Cas Number PubMed IDs
Adenosine monophosphate
  • 5'-AMP
61-19-8
Adenosine triphosphate
  • 5'-(tetrahydrogen triphosphate) Adenosine
56-65-5
Phosphoric acid
  • acide phosphorique (FRENCH)
7664-38-2
Pyrophosphate
  • (4-)Diphosphoric acid ion
14000-31-8
genes like me logo Genes that share compounds with UBE2D3: view

Transcripts for UBE2D3 Gene

Unigene Clusters for UBE2D3 Gene

Ubiquitin-conjugating enzyme E2D 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for UBE2D3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b · 3c ^ 4 ^ 5a · 5b · 5c · 5d · 5e ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11
SP1: - - - - - -
SP2: - - - -
SP3: - -
SP4:
SP5: - - - - - - -
SP6: - - - - -
SP7:
SP8: -
SP9: - -

Relevant External Links for UBE2D3 Gene

GeneLoc Exon Structure for
UBE2D3
ECgene alternative splicing isoforms for
UBE2D3

Expression for UBE2D3 Gene

mRNA expression in normal human tissues for UBE2D3 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for UBE2D3 Gene

SOURCE GeneReport for Unigene cluster for UBE2D3 Gene Hs.518773

genes like me logo Genes that share expressions with UBE2D3: view

Orthologs for UBE2D3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for UBE2D3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia UBE2D3 37
  • 95 (a)
OneToOne
cow
(Bos Taurus)
Mammalia -- 37
  • 93 (a)
OneToMany
-- 37
  • 82 (a)
OneToMany
-- 37
  • 92 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
-- 37
  • 93 (a)
OneToMany
UBE2D3 36
  • 99.32 (n)
  • 99.32 (a)
UBE2D3 37
  • 93 (a)
OneToMany
UBE2D3 37
  • 93 (a)
OneToMany
dog
(Canis familiaris)
Mammalia UBE2D3 36
  • 96.6 (n)
  • 96.58 (a)
UBE2D3 37
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ube2d3 36
  • 98.41 (n)
  • 100 (a)
Ube2d3 16
Ube2d3 37
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia UBE2D3 37
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia UBE2D3 37
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ube2d3 36
  • 98.41 (n)
  • 100 (a)
chicken
(Gallus gallus)
Aves UBE2D3 36
  • 93.42 (n)
  • 100 (a)
UBE2D3 37
  • 100 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.20094 36
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.15169 36
zebrafish
(Danio rerio)
Actinopterygii ube2d2l 37
  • 93 (a)
OneToMany
ube2d3 36
  • 80.73 (n)
  • 95.24 (a)
wufj13d01 36
fruit fly
(Drosophila melanogaster)
Insecta eff 37
  • 90 (a)
OneToMany
CG10862 38
  • 50 (a)
eff 38
  • 93 (a)
CG2574 38
  • 50 (a)
worm
(Caenorhabditis elegans)
Secernentea let-70 37
  • 90 (a)
OneToMany
let-70 38
  • 92 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBC5 39
soybean
(Glycine max)
eudicotyledons Gma.13248 36
rice
(Oryza sativa)
Liliopsida Os.11479 36
Os02g0120600 36
  • 65.31 (n)
  • 80.27 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.1816 36
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10809 37
  • 81 (a)
OneToMany
Species with no ortholog for UBE2D3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for UBE2D3 Gene

ENSEMBL:
Gene Tree for UBE2D3 (if available)
TreeFam:
Gene Tree for UBE2D3 (if available)

Paralogs for UBE2D3 Gene

Paralogs for UBE2D3 Gene

genes like me logo Genes that share paralogs with UBE2D3: view

Variants for UBE2D3 Gene

Sequence variations from dbSNP and Humsavar for UBE2D3 Gene

SNP ID Clin Chr 04 pos Sequence Context AA Info Type MAF
rs65671 -- 102,801,081(+) CTCAG(A/G)ATTCA intron-variant
rs149576 -- 102,811,411(+) gcaca(G/T)tggct intron-variant
rs150893 -- 102,817,075(-) TTGTT(C/G)TTGGT intron-variant
rs150894 -- 102,811,541(+) gccac(A/G)catag intron-variant
rs223392 -- 102,824,599(+) TCTTA(A/G)CCACT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for UBE2D3 Gene

Variant ID Type Subtype PubMed ID
nsv526256 CNV Loss 19592680
esv2728080 CNV Deletion 23290073
nsv10541 CNV Loss 18304495
esv2672686 CNV Deletion 23128226
dgv965e199 CNV Deletion 23128226
esv23610 CNV Loss 19812545
dgv1655e1 CNV Complex 17122850
dgv1656e1 CNV Complex 17122850
esv2675680 CNV Deletion 23128226
nsv879683 CNV Loss 21882294

Relevant External Links for UBE2D3 Gene

HapMap Linkage Disequilibrium report
UBE2D3

Disorders for UBE2D3 Gene

Relevant External Links for UBE2D3

Genetic Association Database (GAD)
UBE2D3
Human Genome Epidemiology (HuGE) Navigator
UBE2D3
genes like me logo Genes that share disorders with UBE2D3: view

No data available for UniProtKB/Swiss-Prot for UBE2D3 Gene

Publications for UBE2D3 Gene

  1. Topors functions as an E3 ubiquitin ligase with specific E2 enzymes and ubiquitinates p53. (PMID: 15247280) Rajendra R. … Rubin E.H. (J. Biol. Chem. 2004) 3 4 23
  2. Identification of a family of closely related human ubiquitin conjugating enzymes. (PMID: 8530467) Jensen J.P. … Weissman A.M. (J. Biol. Chem. 1995) 2 3 4
  3. Direct activation of protein kinases by unanchored polyubiquitin chains. (PMID: 19675569) Xia Z.-P. … Chen Z.J. (Nature 2009) 3 23
  4. Human ubiquitin-protein ligase Nedd4: expression, subcellular localization and selective interaction with ubiquitin-conjugating enzymes. (PMID: 9990509) Anan T. … Nakao M. (Genes Cells 1998) 3 23
  5. Cooperation of HECT-domain ubiquitin ligase hHYD and DNA topoisomerase II-binding protein for DNA damage response. (PMID: 11714696) Honda Y. … Nakao M. (J. Biol. Chem. 2002) 3 23

Products for UBE2D3 Gene

Sources for UBE2D3 Gene

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