UBD ubiquitin D [Homo sapiens (human)] - Gene

Summary

Official Symbol: UBDprovided by HGNC
Official Full Name: ubiquitin Dprovided by HGNC
Primary source: HGNC:HGNC:18795
See related: Ensembl:ENSG00000213886 MIM:606050; AllianceGenome:HGNC:18795
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as: FAT10; UBD-3
Summary: 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]
Expression: Biased expression in lymph node (RPKM 113.8), appendix (RPKM 64.9) and 10 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 6p22.1

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	6	NC_000006.12 (29555515..29559732, complement)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	6	NC_060930.1 (29430199..29434416, complement)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	6	NC_000006.11 (29523292..29527509, complement)

Chromosome 6 - NC_000006.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
BioProject: PRJEB4337
Publication: PMID 24309898
Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

FAT10 induces immune suppression by upregulating PD-L1 expression in hepatocellular carcinoma.
Title: FAT10 induces immune suppression by upregulating PD-L1 expression in hepatocellular carcinoma.
Cytokines-activated nuclear IKKalpha-FAT10 pathway induces breast cancer tamoxifen-resistance.
Title: Cytokines-activated nuclear IKKα-FAT10 pathway induces breast cancer tamoxifen-resistance.
The ubiquitin-like modifier FAT10 is induced in MASLD and impairs the lipid-regulatory activity of PPARalpha.
Title: The ubiquitin-like modifier FAT10 is induced in MASLD and impairs the lipid-regulatory activity of PPARα.
UBDP1 pseudogene and UBD network competitively bind miR-6072 to promote glioma progression.
Title: UBDP1 pseudogene and UBD network competitively bind miR‑6072 to promote glioma progression.
FAT10 differentially stabilizes MYPT2 isoforms.
Title: FAT10 differentially stabilizes MYPT2 isoforms.
Tumor necrosis factor mediates USE1-independent FAT10ylation under inflammatory conditions.
Title: Tumor necrosis factor mediates USE1-independent FAT10ylation under inflammatory conditions.
FAT10 and NUB1L cooperate to activate the 26S proteasome.
Title: FAT10 and NUB1L cooperate to activate the 26S proteasome.
FAT10 Silencing Prevents Liver Fibrosis through Regulating SIRT1 Expression in Hepatic Stellate Cells.
Title: FAT10 Silencing Prevents Liver Fibrosis through Regulating SIRT1 Expression in Hepatic Stellate Cells.
Ubiquitin D promotes the progression of rheumatoid arthritis via activation of the p38 MAPK pathway.
Title: Ubiquitin D promotes the progression of rheumatoid arthritis via activation of the p38 MAPK pathway.
Recombinant Human Proteoglycan 4 (rhPRG4) Downregulates TNFalpha-Stimulated NFkappaB Activity and FAT10 Expression in Human Corneal Epithelial Cells.
Title: Recombinant Human Proteoglycan 4 (rhPRG4) Downregulates TNFα-Stimulated NFκB Activity and FAT10 Expression in Human Corneal Epithelial Cells.

Submit: New GeneRIF Correction See all GeneRIFs (89)

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide scan of Ashkenazi Jewish Crohn's disease suggests novel susceptibility loci. EBI GWAS Catalog EBI GWAS CatalogPubMed
Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
HIV-1 LAI infection downregulates UBD (FAT10) and IFI6 mRNA levels in HeLa cells, which results from IFNG signaling inhibition	PubMed

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
Vpr	vpr	HIV-1 Vpr and FAT10 co-localize to mitochondria with marker protein Cox4	PubMed
	vpr	HIV-1 Vpr upregulates FAT10 expression and that Vpr-mediated upregulation of FAT10 enhances Vpr-induced apoptosis	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 Interaction Database

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

STS-N33920 (e-PCR)
- UniSTS:71975

RH93792 (e-PCR)
- UniSTS:87859

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables proteasome binding	IBA Inferred from Biological aspect of Ancestor more info
enables proteasome binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in aggresome assembly	IDA Inferred from Direct Assay more info	PubMed
involved_in myeloid dendritic cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of canonical NF-kappaB signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of canonical NF-kappaB signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein modification by small protein conjugation	NAS Non-traceable Author Statement more info	PubMed
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein ubiquitination	IDA Inferred from Direct Assay more info	PubMed
involved_in proteolysis	NAS Non-traceable Author Statement more info	PubMed
involved_in regulation of mitotic cell cycle phase transition	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in response to tumor necrosis factor	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to type II interferon	IBA Inferred from Biological aspect of Ancestor more info
involved_in response to type II interferon	IEP Inferred from Expression Pattern more info	PubMed
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in aggresome	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	TAS Traceable Author Statement more info
located_in fibrillar center	IDA Inferred from Direct Assay more info
located_in nucleoplasm	IDA Inferred from Direct Assay more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: ubiquitin D

Names: diubiquitin; ubiquitin-like protein FAT10

NCBI Reference Sequences (RefSeq)

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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.