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Aliases for UBE2D3 Gene

Aliases for UBE2D3 Gene

  • Ubiquitin Conjugating Enzyme E2 D3 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
  • (E3-Independent) E2 Ubiquitin-Conjugating Enzyme D3 3 4
  • Ubiquitin-Conjugating Enzyme E2-17 KDa 3 3 4
  • Ubiquitin-Conjugating Enzyme E2(17)KB 3 3 4
  • Ubiquitin Conjugating Enzyme E2D 3 3 5
  • E2 Ubiquitin-Conjugating Enzyme D3 3 4
  • Ubiquitin Carrier Protein D3 3 4
  • Ubiquitin-Protein Ligase D3 3 4
  • UBCH5C 3 4
  • Ubiquitin-Conjugating Enzyme E2D 3 2
  • EC 6.3.2.19 63
  • EC 2.3.2.23 4
  • EC 2.3.2.24 4
  • E2(17)KB 3 3
  • E2(17)KB3 3
  • PRO2116 3
  • UBC4/5 3
  • UBC5C 4

External Ids for UBE2D3 Gene

Previous GeneCards Identifiers for UBE2D3 Gene

  • GC04M104116
  • GC04M104026
  • GC04M104175
  • GC04M104074
  • GC04M103936
  • GC04M103717
  • GC04M099453

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 E2 D3) is a Protein Coding gene. Among its related pathways are Gene Expression and Signaling by GPCR. GO annotations related to this gene include ligase activity and acid-amino acid ligase 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.

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

Regulatory Elements for UBE2D3 Gene

Promoters for UBE2D3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around UBE2D3 on UCSC Golden Path with GeneCards custom track

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

Genomic Location for UBE2D3 Gene

Chromosome:
4
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

Genes around UBE2D3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
UBE2D3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for UBE2D3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for UBE2D3 Gene

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

Antibody Products

  • R&D Systems Antibodies for UBE2D3 (UbcH5c/UBE2D3)
  • Cell Signaling Technology (CST) Antibodies for UBE2D3 (UBE2D3)

Domains & Families for UBE2D3 Gene

Gene Families for UBE2D3 Gene

Protein Domains for UBE2D3 Gene

Suggested Antigen Peptide Sequences for UBE2D3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P61077

UniProtKB/Swiss-Prot:

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

Function for UBE2D3 Gene

Molecular function for UBE2D3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [E2 ubiquitin-conjugating enzyme]-L-cysteine = [E1 ubiquitin-activating enzyme]-L-cysteine + S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine.
UniProtKB/Swiss-Prot CatalyticActivity:
S-ubiquitinyl-[E1 ubiquitin-activating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E1 ubiquitin-activating enzyme]-L-cysteine + N(6)-monoubiquitinyl-[acceptor protein]-L-lysine.
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.

Enzyme Numbers (IUBMB) for UBE2D3 Gene

Gene Ontology (GO) - Molecular Function for UBE2D3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016874 ligase activity IEA --
genes like me logo Genes that share ontologies with UBE2D3: view
genes like me logo Genes that share phenotypes with UBE2D3: view

Animal Models for UBE2D3 Gene

MGI Knock Outs for UBE2D3:

Animal Model Products

  • Taconic Biosciences Mouse Models for UBE2D3

miRNA for UBE2D3 Gene

miRTarBase miRNAs that target UBE2D3

Inhibitory RNA Products

In Situ Assay Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets 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
extracellular 5
nucleus 5
cytosol 4
endosome 3
plasma membrane 3

Gene Ontology (GO) - Cellular Components for UBE2D3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0070062 extracellular exosome IDA 23533145
genes like me logo Genes that share ontologies with UBE2D3: view

Pathways & Interactions 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:0000209 protein polyubiquitination IDA 14765125
GO:0002756 MyD88-independent toll-like receptor signaling pathway TAS --
GO:0006281 DNA repair IEA --
GO:0006351 transcription, DNA-templated TAS --
GO:0006367 transcription initiation from RNA polymerase II promoter TAS --
genes like me logo Genes that share ontologies with UBE2D3: view

No data available for SIGNOR curated interactions for UBE2D3 Gene

Drugs & Compounds for UBE2D3 Gene

(4) Drugs for UBE2D3 Gene - From: HMDB and ApexBio

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine monophosphate Approved Nutra 0
Adenosine triphosphate Approved Nutra 0
Diphosphate Experimental Pharma 0
NSC697923 Pharma Inhibitor of E2 complex Ubc13-Uev1A,cell permeable and selective, Selective UBE2N inhibitor 0

(1) Additional Compounds for UBE2D3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
phosphoric acid
  • Acide phosphorique (FRENCH)
  • Acido fosforico [Italian]
  • Acidum phosphoricum
  • Diphosphate tetrasodium
  • Fosforzuuroplossingen [Dutch]
7664-38-2

(1) ApexBio Compounds for UBE2D3 Gene

Compound Action Cas Number
NSC697923 Inhibitor of E2 complex Ubc13-Uev1A,cell permeable and selective 343351-67-7
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

Protein differential expression in normal tissues from HIPED for UBE2D3 Gene

This gene is overexpressed in Rectum (14.8).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with UBE2D3: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Protein tissue co-expression partners for UBE2D3 Gene

Orthologs for UBE2D3 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for UBE2D3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia UBE2D3 35
  • 99.32 (n)
  • 99.32 (a)
-- 36
  • 93 (a)
OneToMany
-- 36
  • 82 (a)
OneToMany
-- 36
  • 92 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
-- 36
  • 93 (a)
OneToMany
UBE2D3 36
  • 93 (a)
OneToMany
UBE2D3 36
  • 93 (a)
OneToMany
dog
(Canis familiaris)
Mammalia UBE2D3 35
  • 96.6 (n)
  • 96.58 (a)
UBE2D3 36
  • 96 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ube2d3 35
  • 98.41 (n)
  • 100 (a)
Ube2d3 16
Ube2d3 36
  • 97 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ube2d3 35
  • 98.41 (n)
  • 100 (a)
oppossum
(Monodelphis domestica)
Mammalia UBE2D3 36
  • 96 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia UBE2D3 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia UBE2D3 36
  • 95 (a)
OneToOne
chicken
(Gallus gallus)
Aves UBE2D3 35
  • 93.42 (n)
  • 100 (a)
UBE2D3 36
  • 100 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.15169 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.20094 35
zebrafish
(Danio rerio)
Actinopterygii ube2d3 35
  • 80.73 (n)
  • 95.24 (a)
wufj13d01 35
ube2d2l 36
  • 93 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta CG10862 37
  • 50 (a)
CG2574 37
  • 50 (a)
eff 37
  • 93 (a)
eff 36
  • 90 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea let-70 37
  • 92 (a)
let-70 36
  • 90 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBC5 38
soybean
(Glycine max)
eudicotyledons Gma.13248 35
rice
(Oryza sativa)
Liliopsida Os.11479 35
Os02g0120600 35
  • 65.31 (n)
  • 80.27 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.1816 35
sea squirt
(Ciona savignyi)
Ascidiacea CSA.10809 36
  • 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

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
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
rs594274 -- 102,800,183(+) GCTGT(A/T)TTAAA intron-variant
rs184393 -- 102,864,425(+) CAAAG(A/G)ATGTT 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

Variation tolerance for UBE2D3 Gene

Residual Variation Intolerance Score: 52.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.15; 3.36% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for UBE2D3 Gene

HapMap Linkage Disequilibrium report
UBE2D3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for UBE2D3 Gene

Disorders for UBE2D3 Gene

Relevant External Links for UBE2D3

Genetic Association Database (GAD)
UBE2D3
Human Genome Epidemiology (HuGE) Navigator
UBE2D3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
UBE2D3

No disorders were found for UBE2D3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for UBE2D3 Gene

Publications for UBE2D3 Gene

  1. 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 67
  2. Direct activation of protein kinases by unanchored polyubiquitin chains. (PMID: 19675569) Xia Z.-P. … Chen Z.J. (Nature 2009) 3 23
  3. 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 23
  4. 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
  5. 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

Products for UBE2D3 Gene

Sources for UBE2D3 Gene

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