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Aliases for UBD Gene

Aliases for UBD Gene

  • Ubiquitin D 2 3 5
  • Ubiquitin-Like Protein FAT10 3 4
  • Diubiquitin 3 4
  • FAT10 3 4
  • GABBR1 3
  • UBD-3 3

External Ids for UBD Gene

Previous GeneCards Identifiers for UBD Gene

  • GC06M029580
  • GC06M029294
  • GC06M029632
  • GC06M029633
  • GC06M029634
  • GC06Mc29667
  • GC06M029330

Summaries for UBD Gene

GeneCards Summary for UBD Gene

UBD (Ubiquitin D) is a Protein Coding gene. Diseases associated with UBD include nephrosclerosis and kidney disease. Among its related pathways are Signaling by GPCR and Circadian entrainment. GO annotations related to this gene include proteasome binding. An important paralog of this gene is UBC.

UniProtKB/Swiss-Prot for UBD Gene

  • 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. Conjugation ability activated by UBA6. 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 such as polycystic kidney disease and Human immunodeficiency virus (HIV)-associated nephropathy (HIVAN).

Gene Wiki entry for UBD Gene

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

Genomics for UBD Gene

Regulatory Elements for UBD Gene

Genomic Location for UBD Gene

Chromosome:
6
Start:
29,555,515 bp from pter
End:
29,559,925 bp from pter
Size:
4,411 bases
Orientation:
Minus strand

Genomic View for UBD Gene

Genes around UBD on UCSC Golden Path with GeneCards custom track

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

Proteins for UBD Gene

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

    Protein Symbol:
    O15205-UBD_HUMAN
    Recommended name:
    Ubiquitin D
    Protein Accession:
    O15205
    Secondary Accessions:
    • B0UZT6
    • Q5STL2
    • Q5SUK2
    • Q96EC7

    Protein attributes for UBD Gene

    Size:
    165 amino acids
    Molecular mass:
    18473 Da
    Quaternary structure:
    • 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).
    Miscellaneous:
    • Common types of chronic kidney disease are associated with tubulointerstitial up-regulation of FAT10. FAT10 may mediate NF-kappa-B activation and may promote tubulointerstitial inflammation in chronic kidney diseases.

    Three dimensional structures from OCA and Proteopedia for UBD Gene

neXtProt entry for UBD Gene

Proteomics data for UBD Gene at MOPED

Post-translational modifications for UBD Gene

Other Protein References for UBD Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

No data available for DME Specific Peptides for UBD Gene

Domains & Families for UBD Gene

Protein Domains for UBD Gene

Suggested Antigen Peptide Sequences for UBD Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O15205

UniProtKB/Swiss-Prot:

UBD_HUMAN :
  • Contains 2 ubiquitin-like domains.
Domain:
  • Contains 2 ubiquitin-like domains.
genes like me logo Genes that share domains with UBD: view

No data available for Gene Families for UBD Gene

Function for UBD Gene

Molecular function for UBD Gene

UniProtKB/Swiss-Prot Function:
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. Conjugation ability activated by UBA6. 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 such as polycystic kidney disease and Human immunodeficiency virus (HIV)-associated nephropathy (HIVAN).
UniProtKB/Swiss-Prot Induction:
Rapidly degraded by the proteasome. Cell-cycle regulation with highest expression during the S-phase (at protein level). Induced during dendritic cell maturation. Negatively regulated by p53/TP53. High levels in various gastrointestinal and gynecological cancer cells. Induced in RTECs in common renal diseases including diabetic nephropathy (DN), IgA nephropathy (IgAN), and hypertensive nephrosclerosis (HN), as well as in hepatocellular carcinoma (HCC) and during HIVAN. Inducible by the proinflammatory cytokines IFNG/IFN-gamma and TNF in cancers of liver and colon. Repressed by NUB1L (at protein level).
genes like me logo Genes that share phenotypes with UBD: view

Animal Models for UBD Gene

MGI Knock Outs for UBD:

Animal Model Products

  • Taconic Biosciences Mouse Models for UBD

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for UBD Gene

Localization for UBD Gene

Subcellular locations from UniProtKB/Swiss-Prot for UBD Gene

Nucleus. Cytoplasm. Note=Accumulates in aggresomes under proteasome inhibition conditions.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for UBD Gene COMPARTMENTS Subcellular localization image for UBD gene
Compartment Confidence
cytosol 3
extracellular 1
nucleus 1

Gene Ontology (GO) - Cellular Components for UBD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 12730673
GO:0005737 cytoplasm IEA,ISS --
genes like me logo Genes that share ontologies with UBD: view

Pathways & Interactions for UBD Gene

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

Gene Ontology (GO) - Biological Process for UBD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis NAS 9368598
GO:0006511 ubiquitin-dependent protein catabolic process IEA,IDA 17889673
GO:0016567 protein ubiquitination IEA,IDA 15831455
GO:0032446 protein modification by small protein conjugation NAS 9368598
GO:0034612 response to tumor necrosis factor IEA,IEP 17889673
genes like me logo Genes that share ontologies with UBD: view

No data available for SIGNOR curated interactions for UBD Gene

Drugs & Compounds for UBD Gene

No Compound Related Data Available

Transcripts for UBD Gene

mRNA/cDNA for UBD Gene

(1) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(255) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for UBD Gene

Ubiquitin D:
Representative Sequences:

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

No ASD Table

Relevant External Links for UBD Gene

GeneLoc Exon Structure for
UBD
ECgene alternative splicing isoforms for
UBD

Expression for UBD Gene

mRNA expression in normal human tissues for UBD Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Small Intestine - Terminal Ileum (x6.2), Liver (x5.5), Pancreas (x4.9), and Minor Salivary Gland (x4.8).

Protein differential expression in normal tissues from HIPED for UBD Gene

This gene is overexpressed in Monocytes (32.0), Ovary (16.7), Liver (12.8), and Islet of Langerhans (7.5).

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



SOURCE GeneReport for Unigene cluster for UBD Gene Hs.44532

mRNA Expression by UniProt/SwissProt for UBD Gene

O15205-UBD_HUMAN
Tissue specificity: Constitutively expressed in mature dendritic cells and B-cells. Mostly expressed in the reticuloendothelial system (e.g. thymus, spleen), the gastrointestinal system, kidney, lung and prostate gland.
genes like me logo Genes that share expression patterns with UBD: view

Protein tissue co-expression partners for UBD Gene

Primer Products

In Situ Assay Products

Orthologs for UBD Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for UBD Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia UBD 35
  • 77.64 (n)
  • 70.19 (a)
-- 36
  • 69 (a)
OneToMany
UBD 36
  • 66 (a)
OneToMany
dog
(Canis familiaris)
Mammalia LOC100687262 35
  • 79.67 (n)
  • 72.22 (a)
UBD 36
  • 50 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Ubd 35
  • 74.28 (n)
  • 70.99 (a)
Ubd 16
Ubd 36
  • 71 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia UBD 35
  • 98.59 (n)
  • 95.76 (a)
UBD 36
  • 96 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ubd 35
  • 76.04 (n)
  • 75 (a)
oppossum
(Monodelphis domestica)
Mammalia UBD 36
  • 55 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia UBD 36
  • 48 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia UBD 36
  • 42 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Ubi-p63E 36
  • 8 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBI4 36
  • 14 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 8 (a)
OneToOne
Species with no ortholog for UBD:
  • 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)
  • 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)
  • 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 (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for UBD Gene

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

Paralogs for UBD Gene

Paralogs for UBD Gene

(5) SIMAP similar genes for UBD Gene using alignment to 1 proteins:

Pseudogenes.org Pseudogenes for UBD Gene

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

Variants for UBD Gene

Sequence variations from dbSNP and Humsavar for UBD Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs2076484 - 29,556,226(-) TCTTT(C/T)GCTGG reference, missense
rs2076485 - 29,556,175(-) TGGCA(C/G/T)TGACA reference, missense
rs2076486 - 29,556,095(-) TGGAG(C/T)CAGGT reference, missense
rs7757931 - 29,555,893(+) CAATA(A/C)AATAA reference, missense
rs2076487 - 29,556,082(-) TGAGG(C/G)AAAGA reference, missense

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

Variant ID Type Subtype PubMed ID
dgv1908e1 CNV Complex 17122850
essv18215 CNV CNV 17122850
nsv5239 CNV Loss 18451855

Variation tolerance for UBD Gene

Residual Variation Intolerance Score: 90.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 10.26; 90.58% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for UBD Gene

HapMap Linkage Disequilibrium report
UBD
Human Gene Mutation Database (HGMD)
UBD

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

Disorders for UBD Gene

MalaCards: The human disease database

(2) MalaCards diseases for UBD Gene - From: GeneCards

Disorder Aliases PubMed IDs
nephrosclerosis
  • renal sclerosis
kidney disease
  • nephropathy
- elite association - COSMIC cancer census association via MalaCards
Search UBD in MalaCards View complete list of genes associated with diseases

Relevant External Links for UBD

Genetic Association Database (GAD)
UBD
Human Genome Epidemiology (HuGE) Navigator
UBD
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
UBD
genes like me logo Genes that share disorders with UBD: view

No data available for UniProtKB/Swiss-Prot and Genatlas for UBD Gene

Publications for UBD Gene

  1. Identification and analysis of a novel member of the ubiquitin family expressed in dendritic cells and mature B cells. (PMID: 9368598) Bates E.E.M. … Lebecque S. (Eur. J. Immunol. 1997) 2 3 4 67
  2. A regulatory single nucleotide polymorphism in the ubiquitin D gene associated with celiac disease. (PMID: 19808075) Castellanos-Rubio A. … Bilbao J.R. (Hum. Immunol. 2010) 3 23
  3. Structural basis for recognition of diubiquitins by NEMO. (PMID: 19185524) Lo Y.C. … Wu H. (Mol. Cell 2009) 3 23
  4. Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation. (PMID: 19303852) Rahighi S. … Dikic I. (Cell 2009) 3 23
  5. SNP mapping and candidate gene sequencing in the class I region of the HLA complex: searching for multiple sclerosis susceptibility genes in Tasmanians. (PMID: 17971048) Burfoot R.K. … Rubio J.P. (Tissue Antigens 2008) 3 23

Products for UBD Gene

Sources for UBD Gene

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