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OTUD3 OTU deubiquitinase 3 [ Homo sapiens (human) ]

Gene ID: 23252, updated on 15-Jun-2019

Summary

Official Symbol
OTUD3provided by HGNC
Official Full Name
OTU deubiquitinase 3provided by HGNC
Primary source
HGNC:HGNC:29038
See related
Ensembl:ENSG00000169914 MIM:611758
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
DUBA4
Expression
Broad expression in testis (RPKM 8.1), endometrium (RPKM 3.2) and 23 other tissues See more
Orthologs

Genomic context

See OTUD3 in Genome Data Viewer
Location:
1p36.13
Exon count:
8
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 1 NC_000001.11 (19881708..19912945)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (20208356..20239438)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene transmembrane and coiled-coil domains 4 Neighboring gene ring finger protein 186 Neighboring gene uncharacterized LOC105376823 Neighboring gene phospholipase A2 group IIE Neighboring gene RNA, 7SL, cytoplasmic 304, pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide association identifies multiple ulcerative colitis susceptibility loci.
NHGRI GWA Catalog
Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL).
NHGRI GWA Catalog
Genome-wide association study of ulcerative colitis identifies three new susceptibility loci, including the HNF4A region.
NHGRI GWA Catalog
Genome-wide association study of ulcerative colitis in Koreans suggests extensive overlapping of genetic susceptibility with Caucasians.
NHGRI GWA Catalog
Ulcerative colitis-risk loci on chromosomes 1p36 and 12q15 found by genome-wide association study.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of OTU domain containing 3 (OTUD3) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Deubiquitination, organism-specific biosystem (from REACTOME)
    Deubiquitination, organism-specific biosystemUbiquitination, the modification of proteins by the covalent attachment of ubiquitin (Ub), is a key regulatory mechanism for many many cellular processes, including protein degradation by the 26S pro...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • Ovarian tumor domain proteases, organism-specific biosystem (from REACTOME)
    Ovarian tumor domain proteases, organism-specific biosystemHumans have 16 Overian tumour domain (OTU) family DUBs that can be evolutionally divided into three classes, the OTUs, the Otubains (OTUBs), and the A20-like OTUs (Komander et al. 2009). OTU family ...
  • Post-translational protein modification, organism-specific biosystem (from REACTOME)
    Post-translational protein modification, organism-specific biosystemAfter translation, many newly formed proteins undergo further covalent modifications that alter their functional properties and that are essentially irreversible under physiological conditions in the...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • KIAA0459

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
thiol-dependent ubiquitin-specific protease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
thiol-dependent ubiquitin-specific protease activity IDA
Inferred from Direct Assay
more info
PubMed 
thiol-dependent ubiquitin-specific protease activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
thiol-dependent ubiquitinyl hydrolase activity TAS
Traceable Author Statement
more info
 
Process Evidence Code Pubs
negative regulation of protein kinase B signaling IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of protein kinase B signaling IMP
Inferred from Mutant Phenotype
more info
PubMed 
protein K11-linked deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein K11-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein K27-linked deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein K27-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein K48-linked deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein K48-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein K6-linked deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein K6-linked deubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
protein deubiquitination IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein deubiquitination TAS
Traceable Author Statement
more info
 
protein stabilization IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein stabilization IDA
Inferred from Direct Assay
more info
PubMed 
protein stabilization IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
cytosol TAS
Traceable Author Statement
more info
 

General protein information

Preferred Names
OTU domain-containing protein 3
Names
OTU domain containing 3
NP_056022.1
XP_005245849.1
XP_005245850.1
XP_005245851.1
XP_024310088.1

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_015207.2NP_056022.1  OTU domain-containing protein 3

    See identical proteins and their annotated locations for NP_056022.1

    Status: VALIDATED

    Source sequence(s)
    AA829387, AB007928, CV573628
    Consensus CDS
    CCDS41279.1
    UniProtKB/Swiss-Prot
    Q5T2D3
    Related
    ENSP00000364261.3, ENST00000375120.4
    Conserved Domains (1) summary
    cl19932
    Location:71157
    OTU; OTU-like cysteine protease

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p13 Primary Assembly

    Range
    19881708..19912945
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005245793.4XP_005245850.1  OTU domain-containing protein 3 isoform X2

    Conserved Domains (2) summary
    pfam08561
    Location:69115
    Ribosomal_L37; Mitochondrial ribosomal protein L37
    cl19932
    Location:146232
    OTU; OTU-like cysteine protease
  2. XM_005245792.4XP_005245849.1  OTU domain-containing protein 3 isoform X1

    Conserved Domains (1) summary
    cl19932
    Location:146232
    OTU; OTU-like cysteine protease
  3. XM_024454320.1XP_024310088.1  OTU domain-containing protein 3 isoform X3

  4. XM_005245794.3XP_005245851.1  OTU domain-containing protein 3 isoform X4

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