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Aliases for UBE2D4 Gene

Aliases for UBE2D4 Gene

  • Ubiquitin Conjugating Enzyme E2 D4 (Putative) 2 3 5
  • E2 Ubiquitin-Conjugating Enzyme D4 3 4
  • Ubiquitin Carrier Protein D4 3 4
  • Ubiquitin-Protein Ligase D4 3 4
  • HBUCE1 3 4
  • Ubiquitin-Conjugating Enzyme E2D 4 (Putative) 2
  • Ubiquitin Conjugating Enzyme E2D 4 (Putative) 3
  • Ubiquitin-Conjugating Enzyme HBUCE1 3
  • Ubiquitin-Conjugating Enzyme E2 D4 3
  • EC 6.3.2.19 56
  • EC 2.3.2.23 4
  • UBCH5D 4

External Ids for UBE2D4 Gene

Previous GeneCards Identifiers for UBE2D4 Gene

  • GC07P043740
  • GC07P043932
  • GC07P043966

Summaries for UBE2D4 Gene

GeneCards Summary for UBE2D4 Gene

UBE2D4 (Ubiquitin Conjugating Enzyme E2 D4 (Putative)) is a Protein Coding gene. Among its related pathways are Innate Immune System and Class I MHC mediated antigen processing and presentation. Gene Ontology (GO) annotations related to this gene include ligase activity and acid-amino acid ligase activity. An important paralog of this gene is UBE2D2.

UniProtKB/Swiss-Prot for UBE2D4 Gene

  • Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, but may prefer Lys-11 and Lys-48-linked polyubiquitination.

Additional gene information for UBE2D4 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for UBE2D4 Gene

Genomics for UBE2D4 Gene

GeneHancer (GH) Regulatory Elements for UBE2D4 Gene

Promoters and enhancers for UBE2D4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH07I043925 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 550.8 +0.3 311 2.2 HDGF PKNOX1 CLOCK MLX ARID4B SIN3A DMAP1 ZNF2 SLC30A9 POLR2B URGCP UBE2D4 POLM RASA4CP DBNL PIR62464
GH07I044071 Enhancer 1.3 Ensembl ENCODE dbSUPER 18.1 +147.4 147415 5.3 ELF3 FOXA2 NFIB ARID4B KLF17 SIN3A ZSCAN9 RAD21 YY1 SLC30A9 MIR6838 POLM RASA4CP UBE2D4
GH07I044086 Enhancer 1.3 FANTOM5 Ensembl ENCODE dbSUPER 15.3 +161.9 161878 3.4 BCOR ZNF146 ZNF362 RXRA SAP130 ELF1 E4F1 YY1 POLR2A MXD3 POLM RASA4CP UBE2D4 ENSG00000241057 ENSG00000239775 PGAM2 POLD2 AEBP1 YKT6
GH07I043871 Enhancer 1.4 FANTOM5 Ensembl ENCODE dbSUPER 11.4 -53.3 -53253 2.9 MEIS2 ESRRA KLF1 PKNOX1 NFRKB JUN MAX E4F1 FOSL1 POLR2A URGCP ENSG00000239556 UBE2D4 COA1 RASA4CP MRPS24 URGCP-MRPS24
GH07I043878 Enhancer 1 Ensembl ENCODE dbSUPER 11.4 -45.5 -45540 4.7 PKNOX1 RXRA TEAD1 ZNF189 GLIS1 CEBPB FOS HNF4A URGCP UBE2D4 COA1 RASA4CP POLM ENSG00000241057 MRPS24 URGCP-MRPS24
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around UBE2D4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the UBE2D4 gene promoter:

Genomic Locations for UBE2D4 Gene

Genomic Locations for UBE2D4 Gene
chr7:43,926,436-43,956,136
(GRCh38/hg38)
Size:
29,701 bases
Orientation:
Plus strand
chr7:43,966,035-43,995,735
(GRCh37/hg19)

Genomic View for UBE2D4 Gene

Genes around UBE2D4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
UBE2D4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for UBE2D4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for UBE2D4 Gene

Proteins for UBE2D4 Gene

  • Protein details for UBE2D4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y2X8-UB2D4_HUMAN
    Recommended name:
    Ubiquitin-conjugating enzyme E2 D4
    Protein Accession:
    Q9Y2X8
    Secondary Accessions:
    • A4D1V0

    Protein attributes for UBE2D4 Gene

    Size:
    147 amino acids
    Molecular mass:
    16649 Da
    Quaternary structure:
    No Data Available

neXtProt entry for UBE2D4 Gene

Selected DME Specific Peptides for UBE2D4 Gene

Q9Y2X8:
  • CSAGPVG
  • DPNPDDPLVP
  • NSNGSICLDIL
  • YPFKPPK
  • PLVPEIA
  • YQGGVFFLT
  • HPNINSNG
  • QWSPALT
  • DREKYNR
  • SLLCDPNP
  • TKIYHPN
  • WQATIMGP

Post-translational modifications for UBE2D4 Gene

No Post-translational modifications

Domains & Families for UBE2D4 Gene

Gene Families for UBE2D4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

Suggested Antigen Peptide Sequences for UBE2D4 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y2X8

UniProtKB/Swiss-Prot:

UB2D4_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 UBE2D4: view

Function for UBE2D4 Gene

Molecular function for UBE2D4 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 Function:
Accepts ubiquitin from the E1 complex and catalyzes its covalent attachment to other proteins. In vitro able to promote polyubiquitination using all 7 ubiquitin Lys residues, but may prefer Lys-11 and Lys-48-linked polyubiquitination.

Enzyme Numbers (IUBMB) for UBE2D4 Gene

Gene Ontology (GO) - Molecular Function for UBE2D4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004842 ubiquitin-protein transferase activity IDA 20061386
GO:0005515 protein binding IPI 15231748
GO:0005524 ATP binding IEA --
GO:0016740 transferase activity IEA --
GO:0061631 ubiquitin conjugating enzyme activity IDA 21685362
genes like me logo Genes that share ontologies with UBE2D4: view
genes like me logo Genes that share phenotypes with UBE2D4: view

Clone Products

No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for UBE2D4 Gene

Localization for UBE2D4 Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for UBE2D4 gene
Compartment Confidence
cytosol 4
plasma membrane 2
nucleus 2
extracellular 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Plasma membrane (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for UBE2D4 Gene

Pathways & Interactions for UBE2D4 Gene

genes like me logo Genes that share pathways with UBE2D4: view

Pathways by source for UBE2D4 Gene

UniProtKB/Swiss-Prot Q9Y2X8-UB2D4_HUMAN

  • Pathway: Protein modification; protein ubiquitination.

Gene Ontology (GO) - Biological Process for UBE2D4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016567 protein ubiquitination IDA 21685362
GO:0035519 protein K29-linked ubiquitination IDA 20061386
GO:0044314 protein K27-linked ubiquitination IDA 20061386
GO:0070534 protein K63-linked ubiquitination IDA 20061386
GO:0070936 protein K48-linked ubiquitination IDA 20061386
genes like me logo Genes that share ontologies with UBE2D4: view

No data available for SIGNOR curated interactions for UBE2D4 Gene

Drugs & Compounds for UBE2D4 Gene

(3) Drugs for UBE2D4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Adenosine monophosphate Approved, Investigational Nutra 0
ATP Investigational Nutra Agonist 0

(1) Additional Compounds for UBE2D4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
pyrophosphate
  • (4-)Diphosphoric acid ion
  • (P2O74-)Diphosphate
  • Diphosphate
  • Diphosphoric acid
  • PPi
14000-31-8
genes like me logo Genes that share compounds with UBE2D4: view

Transcripts for UBE2D4 Gene

Unigene Clusters for UBE2D4 Gene

Ubiquitin-conjugating enzyme E2D 4 (putative):
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for UBE2D4 Gene

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

Relevant External Links for UBE2D4 Gene

GeneLoc Exon Structure for
UBE2D4
ECgene alternative splicing isoforms for
UBE2D4

Expression for UBE2D4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for UBE2D4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for UBE2D4 Gene

This gene is overexpressed in Muscle - Skeletal (x6.2).

Protein differential expression in normal tissues from HIPED for UBE2D4 Gene

This gene is overexpressed in Heart (51.0) and Brain (16.5).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for UBE2D4 Gene



Protein tissue co-expression partners for UBE2D4 Gene

NURSA nuclear receptor signaling pathways regulating expression of UBE2D4 Gene:

UBE2D4

SOURCE GeneReport for Unigene cluster for UBE2D4 Gene:

Hs.19196

Evidence on tissue expression from TISSUES for UBE2D4 Gene

  • Nervous system(4.3)
  • Muscle(2)
genes like me logo Genes that share expression patterns with UBE2D4: view

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for UBE2D4 Gene

Orthologs for UBE2D4 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for UBE2D4 Gene

Organism Taxonomy Gene Similarity Type Details
oppossum
(Monodelphis domestica)
Mammalia UBE2D4 34
  • 99 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia -- 34
  • 95 (a)
ManyToMany
mouse
(Mus musculus)
Mammalia Ube2d4 34
  • 91 (a)
OneToOne
Ube2d2b 33 16
  • 76.19 (n)
cow
(Bos Taurus)
Mammalia UBE2D4 33 34
  • 90.8 (n)
rat
(Rattus norvegicus)
Mammalia Ube2d4 33
  • 77.1 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia UBE2D4 34
  • 77 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100497147 33
  • 82.54 (n)
zebrafish
(Danio rerio)
Actinopterygii ube2d4 33 34
  • 82.09 (n)
worm
(Caenorhabditis elegans)
Secernentea F52C6.12 34
  • 71 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBC4 36
thale cress
(Arabidopsis thaliana)
eudicotyledons UBC11 33
  • 69.84 (n)
rice
(Oryza sativa)
Liliopsida Os01g0819400 33
  • 69.84 (n)
Species where no ortholog for UBE2D4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for UBE2D4 Gene

ENSEMBL:
Gene Tree for UBE2D4 (if available)
TreeFam:
Gene Tree for UBE2D4 (if available)

Paralogs for UBE2D4 Gene

Variants for UBE2D4 Gene

Sequence variations from dbSNP and Humsavar for UBE2D4 Gene

SNP ID Clin Chr 07 pos Variation AA Info Type
rs1000034713 -- 43,954,518(+) T/C 3_prime_UTR_variant, intron_variant
rs1000333526 -- 43,931,283(+) AAAAAA/AAAAAAA genic_upstream_transcript_variant, intron_variant
rs1000475857 -- 43,928,492(+) T/C genic_upstream_transcript_variant, intron_variant
rs1000711353 -- 43,936,069(+) C/A genic_upstream_transcript_variant, intron_variant
rs1000831721 -- 43,942,405(+) A/G intron_variant

Structural Variations from Database of Genomic Variants (DGV) for UBE2D4 Gene

Variant ID Type Subtype PubMed ID
esv2759527 CNV gain 17122850
nsv1016724 CNV gain 25217958
nsv1032143 CNV gain 25217958
nsv428165 CNV gain 18775914
nsv830980 CNV loss 17160897

Variation tolerance for UBE2D4 Gene

Residual Variation Intolerance Score: 41.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.47; 28.71% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for UBE2D4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
UBE2D4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for UBE2D4 Gene

Disorders for UBE2D4 Gene

Additional Disease Information for UBE2D4

No disorders were found for UBE2D4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for UBE2D4 Gene

Publications for UBE2D4 Gene

  1. Human chromosome 7: DNA sequence and biology. (PMID: 12690205) Scherer SW … Tsui LC (Science (New York, N.Y.) 2003) 2 3 4 58
  2. The E2 ubiquitin-conjugating enzymes direct polyubiquitination to preferred lysines. (PMID: 20061386) David Y … Navon A (The Journal of biological chemistry 2010) 3 4 58
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  5. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58

Products for UBE2D4 Gene

Sources for UBE2D4 Gene

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