This gene encodes a protein which contains two ubiquitin-like domains and appears to have similar function to ubiquitin. Through covalent attachment, the encoded protein targets other proteins for 26S proteasome degradation. This protein has been implicated to function in many cellular processes, including caspase-dependent apoptosis, formation of aggresomes, mitotic regulation... See more...

Aliases for UBD Gene

Aliases for UBD Gene

  • Ubiquitin D 2 3 4 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
  • GC06M029525
  • GC06M029330

Summaries for UBD Gene

Entrez Gene Summary for UBD Gene

  • This gene encodes a protein which contains two ubiquitin-like domains and appears to have similar function to ubiquitin. Through covalent attachment, the encoded protein targets other proteins for 26S proteasome degradation. This protein has been implicated to function in many cellular processes, including caspase-dependent apoptosis, formation of aggresomes, mitotic regulation, and dendritic cell maturation. Upregulation of this gene may promote inflammation in chronic kidney disease and has been observed in many cancer types. [provided by RefSeq, Aug 2017]

GeneCards Summary for UBD Gene

UBD (Ubiquitin D) is a Protein Coding gene. Diseases associated with UBD include Kidney Disease and Chronic Kidney Disease. Among its related pathways are Presenilin-Mediated Signaling and Ubiquitin-Proteasome Dependent Proteolysis. Gene Ontology (GO) annotations related to this gene include proteasome binding. An important paralog of this gene is UBC.

UniProtKB/Swiss-Prot Summary 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 NUB1-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

Additional gene information for UBD Gene

No data available for CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for UBD Gene

Genomics for UBD Gene

GeneHancer (GH) Regulatory Elements for UBD Gene

Promoters and enhancers for UBD 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
GH06J029559 Promoter/Enhancer 0.9 EPDnew ENCODE 500.7 +0.2 173 0.1 POLR2G RELA POLR2A TBP SAP130 CREM IKZF1 RAD21 HMG20A TEAD3 UBD OR2I1P GABBR1
GH06J029558 Promoter 0.7 Ensembl 500.7 +0.8 824 0.6 ZBTB11 POLR2A YY1 GTF2A2 EHMT2 ZNF740 MLLT1 KAT8 UBD HLA-J HLA-W ENSG00000237669 LINC02829 OR2I1P GABBR1
GH06J029477 Enhancer 0.5 FANTOM5 10.5 +81.8 81827 0.6 GATA2 VEZF1 MITF USF2 FOXJ2 E2F5 lnc-MAS1L-1 MAS1L OR12D3 OR5V1 UBD LINC01015 OR2H2 OR14J1 MAS1LP1 LOC105375008
GH06J029552 Enhancer 0.9 FANTOM5 ENCODE 4.6 +7.2 7177 0.3 ZBTB40 SP1 NFYB OSR2 WT1 SP2 SRF RFX5 OVOL3 ZNF213 TRIM39 HCG18 TRIM26 IFITM4P UBD LINC02829 HLA-F HLA-A OR2I1P
GH06J029553 Enhancer 0.8 ENCODE 0.4 +6.2 6216 0.2 TEAD4 CTCF ZIC2 ZBTB26 EZH2 SMC3 ZBTB17 MXI1 ZFHX2 ZNF777 ZFP57 LINC01015 ENSG00000237669 OR2I1P UBD
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around UBD on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for UBD

Top Transcription factor binding sites by QIAGEN in the UBD gene promoter:
  • c-Myc
  • E47
  • Egr-1
  • Egr-2
  • Hand1
  • Max
  • Nkx3-1
  • SREBP-1a
  • SREBP-1b
  • SREBP-1c

Genomic Locations for UBD Gene

Genomic Locations for UBD Gene
chr6:29,555,515-29,559,925
(GRCh38/hg38)
Size:
4,411 bases
Orientation:
Minus strand
chr6:29,523,292-29,527,702
(GRCh37/hg19)
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 NUB1 via 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 (via ubiquitin-like 1 domain) 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). Interacts with SQSTM1 and TP53/p53 (PubMed:25422469).
    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

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

Gene Families for UBD Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for UBD Gene

Blocks:
  • Ubiquitin domain
InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for UBD Gene

GenScript: Design optimal peptide antigens:
  • Ubiquitin-like protein FAT10 (UBD_HUMAN)
genes like me logo Genes that share domains with UBD: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot 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 NUB1-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 NUB1 (at protein level).

Phenotypes From GWAS Catalog for UBD Gene

Gene Ontology (GO) - Molecular Function for UBD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IEA,IPI 10200259
GO:0070628 proteasome binding IBA,IDA 16707496
genes like me logo Genes that share ontologies with UBD: view
genes like me logo Genes that share phenotypes with UBD: view

Animal Models for UBD Gene

MGI Knock Outs for UBD:
  • Ubd Ubd<tm1Smwe>

Clone Products

No data available for Enzyme Numbers (IUBMB) , 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
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 UBD gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 2
extracellular 2
cytoskeleton 2
mitochondrion 2
endoplasmic reticulum 2
endosome 2
lysosome 2
peroxisome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Nucleoplasm (3)
  • Nucleoli fibrillar center (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for UBD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001650 fibrillar center IDA --
GO:0005634 nucleus IBA,IDA 12730673
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm ISS --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with UBD: view

Pathways & Interactions for UBD Gene

PathCards logo

SuperPathways for UBD Gene

SuperPathway Contained pathways
1 BRCA1 Pathway
.01
-
2 NF-kappaB Signaling
3 Beta-Adrenergic Signaling
.36
4 HIF1Alpha Pathway
-
5 fMLP Pathway
.30
genes like me logo Genes that share pathways with UBD: view

Pathways by source for UBD Gene

17 Qiagen pathways for UBD Gene
  • BRCA1 Pathway
  • CDK5 Pathway
  • Fanconi's Anaemia Pathway
  • HIF1Alpha Pathway
  • Huntington's Disease Pathway
1 Cell Signaling Technology pathway for UBD Gene

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 IBA,IDA 15831455
GO:0032446 protein modification by small protein conjugation NAS 9368598
GO:0034341 response to interferon-gamma IEP,IBA 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 :
8 NCBI additional mRNA sequence :
1 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Clone Products

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

No ASD Table

Relevant External Links for UBD Gene

GeneLoc Exon Structure for
UBD

Expression for UBD Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE 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 and MOPED for UBD Gene



Protein tissue co-expression partners for UBD Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for UBD

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.

Evidence on tissue expression from TISSUES for UBD Gene

  • Spleen(4.5)
genes like me logo Genes that share expression patterns with UBD: view

No data available for Phenotype-based relationships between genes and organs from Gene ORGANizer for UBD Gene

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
chimpanzee
(Pan troglodytes)
Mammalia UBD 31 30
  • 98.59 (n)
OneToOne
dog
(Canis familiaris)
Mammalia LOC100687262 30
  • 79.67 (n)
UBD 31
  • 50 (a)
OneToOne
cow
(Bos Taurus)
Mammalia UBD 31 30
  • 77.64 (n)
OneToMany
-- 31
  • 69 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Ubd 30
  • 76.04 (n)
mouse
(Mus musculus)
Mammalia Ubd 17 31 30
  • 74.28 (n)
oppossum
(Monodelphis domestica)
Mammalia UBD 31
  • 55 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia UBD 31
  • 48 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia UBD 31
  • 42 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Ubi-p63E 31
  • 8 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBI4 31
  • 14 (a)
OneToOne
sea squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 8 (a)
OneToOne
Species where no ortholog for UBD 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)
  • 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)
Aminode:
Evolutionary constrained regions (ECRs) for UBD: view image

Paralogs for UBD Gene

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

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

Variants for UBD Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for UBD Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
749159 Likely Benign: not provided 29,555,933(-) C/T MISSENSE_VARIANT
rs17184290 - p.Glu120Lys
rs2076484 - p.Leu51Ser
rs2076485 - p.Ile68Thr
rs2076486 - p.Ser95Pro

Additional dbSNP identifiers (rs#s) for UBD Gene

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

Variant ID Type Subtype PubMed ID
esv2759411 CNV gain+loss 17122850
nsv1074389 CNV deletion 25765185
nsv1122126 CNV deletion 24896259
nsv1145096 CNV deletion 24896259
nsv5239 CNV deletion 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)

Additional Variant Information for UBD Gene

Human Gene Mutation Database (HGMD)
UBD
SNPedia medical, phenotypic, and genealogical associations of SNPs for
UBD

SNP Genotyping and Copy Number Assay Products

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

Disorders for UBD Gene

MalaCards: The human disease database

(5) MalaCards diseases for UBD Gene - From: DISEASES and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search UBD in MalaCards View complete list of genes associated with diseases

Additional Disease Information for UBD

Genetic Association Database
(GAD)
Human Genome Epidemiology Navigator
(HuGE)
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
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. A regulatory single nucleotide polymorphism in the ubiquitin D gene associated with celiac disease. (PMID: 19808075) Castellanos-Rubio A … Bilbao JR (Human immunology 2010) 3 23 41 54
  2. The ubiquitin-like modifier FAT10 interacts with HDAC6 and localizes to aggresomes under proteasome inhibition. (PMID: 19033385) Kalveram B … Groettrup M (Journal of cell science 2008) 3 4 23 54
  3. 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 RK … Rubio JP (Tissue antigens 2008) 3 23 41 54
  4. FAT10 plays a role in the regulation of chromosomal stability. (PMID: 16495226) Ren J … Lee CG (The Journal of biological chemistry 2006) 3 4 23 54
  5. Role of ubiquitin-like protein FAT10 in epithelial apoptosis in renal disease. (PMID: 16495380) Ross MJ … Klotman PE (Journal of the American Society of Nephrology : JASN 2006) 3 4 23 54

Products for UBD Gene

Sources for UBD Gene