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    UBD ubiquitin D [ Homo sapiens ]

    Gene ID: 10537, updated on 29-Jan-2012
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    Summary

    Official Symbol
    UBDprovided by HGNC
    Official Full Name
    ubiquitin Dprovided by HGNC
    Primary source
    HGNC:18795
    Locus tag
    DADB-115L1.4
    See related
    Ensembl:ENSG00000213886; HPRD:09354; MIM:606050; Vega:OTTHUMG00000031289
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    FAT10; UBD-3; GABBR1
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    Genomic context

    Location :
    6p21.3
    Sequence :
    Chromosome: 6; NC_000006.11 (29523389..29527702, complement)
    See UBD in Epigenomics, MapViewer

    Chromosome 6 - NC_000006.11Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 53, pseudogene Neighboring gene olfactory receptor, family 2, subfamily I, member 1 pseudogene Neighboring gene olfactory receptor, family 2, subfamily H, member 5 pseudogene Neighboring gene small nucleolar RNA, C/D box 32B

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    Genomic regions, transcripts, and products

    Go to nucleotideGraphics FASTA GenBank

    Go to reference sequence details
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    Bibliography

    Related articles in PubMed

    1. FAT10 is a proteasomal degradation signal that is itself regulated by ubiquitination. Buchsbaum S, et al. Mol Biol Cell, 2012 Jan. PMID 22072791.
    2. FAT10 protein binds to polyglutamine proteins and modulates their solubility. Nagashima Y, et al. J Biol Chem, 2011 Aug 26. PMID 21757738.
    3. Replication and further characterization of a Type 1 diabetes-associated locus at the telomeric end of the major histocompatibility complex. Baschal EE, et al. J Diabetes, 2011 Sep. PMID 21631897.
    4. FAT10 modifies p53 and upregulates its transcriptional activity. Li T, et al. Arch Biochem Biophys, 2011 May 15. PMID 21396347.
    5. Polymorphisms in inflammatory pathway genes and their association with colorectal cancer risk. Frank B, et al. Int J Cancer, 2010 Dec 15. PMID 21351261.

    See all (46) citations in PubMed

    See citations in PubMed for homologs of this gene provided by HomoloGene

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    1. Data indicate that the 20,000-bp region is telomeric of the UBD gene and contains LOC729653, a hypothetical gene.
      Title: Replication and further characterization of a Type 1 diabetes-associated locus at the telomeric end of the major histocompatibility complex.
    2. new role for FAT10 in the pathogenesis of polyglutamine diseases.
      Title: FAT10 protein binds to polyglutamine proteins and modulates their solubility.
    3. The p53 transcriptional activity was found to be substantially enhanced in FAT10-overexpressing cells.
      Title: FAT10 modifies p53 and upregulates its transcriptional activity.
    4. USE1 is not only the first E2 enzyme but also the first known substrate of FAT10 conjugation, as it was efficiently auto-FAT10ylated in cis but not in trans.
      Title: USE1 is a bispecific conjugating enzyme for ubiquitin and FAT10, which FAT10ylates itself in cis.
    5. Genetic polymorphism in UBD is associated with colorectal cancer.
      Title: Polymorphisms in inflammatory pathway genes and their association with colorectal cancer risk.
    6. Reverse transcriptase-polymerase chain reaction analysis of intestinal biopsy sample pairs (at diagnosis vs treated) from 30 celiac disease patients confirmed overexpression of UBD in active disease tissue.
      Title: A regulatory single nucleotide polymorphism in the ubiquitin D gene associated with celiac disease.
    7. critical mediator of HIV Vpr-induced apoptosis in renal tubular epithelial cells
      Title: FAT10: a novel mediator of Vpr-induced apoptosis in human immunodeficiency virus-associated nephropathy.
    8. Data show that FAT10 and mutant p53 levels in gastric cancer tissue were significantly correlated with lymph node metastasis and tumor, nodes, metastasis staging.
      Title: FAT10 level in human gastric cancer and its relation with mutant p53 level, lymph node metastasis and TNM staging.
    9. Study reports the crystal structure of the UBAN motif of NEMO bound to linear diubiquitin chains and provide structural and biochemical evidence for the specificity of this interaction versus interactions with Lys63- or Lys48-linked diubiquitin chains
      Title: Specific recognition of linear ubiquitin chains by NEMO is important for NF-kappaB activation.
    10. Structural basis for recognition of diubiquitins by NEMO.
      Title: Structural basis for recognition of diubiquitins by NEMO.
    Submit: New GeneRIF Correction See all (19)
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    Phenotypes

    Review eQTL and phenotype association data in this region using PheGenI

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    HIV-1 protein interactions

    Protein Gene Interaction Pubs
    Rev rev HIV-1 Rev is modified by polyubiquitination at Lys-33 and Lys-115; Lys-33 is the most efficient residue for branching of ubiquitin chains PubMed
    Tat tat HIV-1 Tat is ubiquitinated on Lys71 by Hdm2 in conjunction with ubiquitin-activating enzyme E1 and ubiquitin-conjugating enzyme E2D 1 (UbcH5) PubMed
    capsid gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
    matrix gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
    nucleocapsid gag Monoubiquitinated forms of the HIV-1 matrix (MA), capsid (CA), and nucleocapsid (NC) proteins are detected in mature virus particles PubMed
    p1 gag HIV-1 p1 is mono- or di-ubiquitinated at levels comparable to those of the other HIV-2 Gag domains MA, CA, NC, and p6; cumulative replacement of all lysine residues in NC and p1 or in NC and p6 results in an accumulation of late budding structures PubMed
    p6 gag Ubiquitination of HIV-1 p6-Gag may be important for proper virus release from cells PubMed
    gag The L domain (P(T/S)APP; amino acids 7-11) of HIV-1 p6-Gag interacts with a ubiquitin ligase complex resulting in the monoubiquitination of p6 PubMed

    Go to the HIV-1, Human Protein Interaction Database

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    Interactions

    Products Interactant Other Gene Complex Source Pubs Description
    NP_006389.1 NP_002349.1 MAD2L1    BIND  PubMed MAD2 interacts with FAT10. 
    O15205 Q13257 MAD2L1    HPRD  PubMed  
    O15205 Q9Y5A7 NUB1    HPRD  PubMed  
    O15205 P36897 TGFBR1    HPRD  PubMed  
    BioGRID:115791 BioGRID:115330 HDAC6    BioGRID  PubMed Reconstituted Complex 
    BioGRID:115791 BioGRID:110260 MAD2L1    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex; Two-hybrid 
    BioGRID:115791 BioGRID:119670 NUB1    BioGRID  PubMed Affinity Capture-Western; Reconstituted Complex 
    BioGRID:115791 BioGRID:111660 PSMA6    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:115791 BioGRID:111675 PSMC3    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:115791 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:115791 BioGRID:1205537 gag    BioGRID  PubMed Affinity Capture-Western 
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    General gene information

    Markers

    Genotypes

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    proteasome binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    aggresome assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    myeloid dendritic cell differentiation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    negative regulation of mitotic prometaphase IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    positive regulation of I-kappaB kinase/NF-kappaB cascade IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    positive regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    protein modification by small protein conjugation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    protein ubiquitination IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    proteolysis NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    response to interferon-gamma IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    response to tumor necrosis factor IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    ubiquitin-dependent protein catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    aggresome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
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    General protein information

    Preferred Names
    ubiquitin D
    Names
    ubiquitin D
    diubiquitin
    ubiquitin-like protein FAT10
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    NCBI Reference Sequences (RefSeq)

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_006398.3 → NP_006389.2  ubiquitin D

      Status: VALIDATED

      Source sequence(s)
      AA878968, AF123050, CB111380, DB181897
      Consensus CDS
      CCDS4662.1
      UniProtKB/Swiss-Prot
      O15205
      Related
      ENSP00000366249, OTTHUMP00000029427, ENST00000377050, OTTHUMT00000076628
      Conserved Domains (3) summary
      cd01769
      Location:21 – 76
      Blast Score: 127
      UBL; Ubiquitin-like domain of UBL
      smart00213
      Location:8 – 79
      Blast Score: 178
      UBQ; Ubiquitin homologues
      cl00155
      Location:104 – 165
      Blast Score: 124
      UBQ; Ubiquitin-like proteins

    RefSeqs of Annotated Genomes: Build 37.3

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh37.p5 Primary Assembly

    Genomic

    1. NC_000006.11 Reference GRCh37.p5 Primary Assembly

      Range
      29523389..29527702, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_1

    Genomic

    1. NT_167244.1 Reference GRCh37.p5 ALT_REF_LOCI_1

      Range
      826901..831215, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_2

    Genomic

    1. NT_113891.2 Reference GRCh37.p5 ALT_REF_LOCI_2

      Range
      1042199..1046512, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_3

    Genomic

    1. NT_167245.1 Reference GRCh37.p5 ALT_REF_LOCI_3

      Range
      826740..831053, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_4

    Genomic

    1. NT_167246.1 Reference GRCh37.p5 ALT_REF_LOCI_4

      Range
      826391..830705, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_5

    Genomic

    1. NT_167247.1 Reference GRCh37.p5 ALT_REF_LOCI_5

      Range
      826601..830914, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCh37.p5 ALT_REF_LOCI_6

    Genomic

    1. NT_167248.1 Reference GRCh37.p5 ALT_REF_LOCI_6

      Range
      826707..831021, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000138.1 Alternate HuRef

      Range
      29330777..29334782, complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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    Related Sequences

    Nucleotide Protein
    Heading Accession and Version
    genomic AL031983.2 CAA21458.1
    genomic AL645936.5 (6596..10909) None
    genomic AL662826.11 (29725..34038) None
    genomic BX000688.11 CAI18599.1
    genomic BX927223.9 (49600..53914) None
    genomic CH471081.1 EAX03201.1
    genomic CR759766.5 CAQ06603.1
    genomic CR759770.3 CAQ10041.1
    genomic CR788300.6 (27009..31323) None
    genomic CR942274.1 CAQ10316.1
    mRNA AA878968.1 None
    mRNA AF123050.1 AAD52982.1
    mRNA AK311914.1 BAG34855.1
    mRNA BC012472.1 AAH12472.1
    mRNA CB111380.1 None
    mRNA DB181897.1 None
    mRNA Y12653.1 CAA73200.1
    other-genetic DQ894624.2 ABM85550.1
    Protein Accession Links
    GenePept Link UniProtKB Link
    O15205.2 GenPept UniProtKB/Swiss-Prot:O15205
    Q5RJ89 GenPept UniProtKB/TrEMBL:Q5RJ89
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    Additional Links

    Additional Links

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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