Free for academic non-profit institutions. Other users need a Commercial license

Aliases for OTUD3 Gene

Aliases for OTUD3 Gene

  • OTU Deubiquitinase 3 2 3 5
  • OTU Domain Containing 3 2 3
  • OTU Domain-Containing Protein 3 3
  • EC 3.4.19.12 4
  • KIAA0459 4
  • DUBA4 3

External Ids for OTUD3 Gene

Previous GeneCards Identifiers for OTUD3 Gene

  • GC01P019977
  • GC01P020081
  • GC01P020208
  • GC01P018454

Summaries for OTUD3 Gene

GeneCards Summary for OTUD3 Gene

OTUD3 (OTU Deubiquitinase 3) is a Protein Coding gene. Among its related pathways are Ovarian tumor domain proteases and Metabolism of proteins. GO annotations related to this gene include thiol-dependent ubiquitin-specific protease activity.

UniProtKB/Swiss-Prot for OTUD3 Gene

  • Deubiquitinating enzyme that hydrolyzes Lys-6- and Lys-11-linked polyubiquitin. Also hydrolyzes heterotypic (mixed and branched) and homotypic chains.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for OTUD3 Gene

Genomics for OTUD3 Gene

Regulatory Elements for OTUD3 Gene

Enhancers for OTUD3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01F019871 1 ENCODE 41.9 -9.2 -9168 1.3 ATF1 PKNOX1 ARNT ZNF766 GATA2 FOS NCOA1 REST CREB3 MEF2D OTUD3 EMC1 PIR53184 GC01M019829
GH01F019642 1.4 Ensembl ENCODE 23.6 -233.0 -233019 11.8 HDGF PKNOX1 MLX ARID4B SIN3A ZNF2 YY1 ZNF416 ZNF143 ZNF548 OTUD3 EMC1 HTR6 MUL1 NBL1 GC01M019654
GH01F018901 1.1 ENCODE 25.2 -978.9 -978850 3.6 HDGF PKNOX1 ARNT MLX WRNIP1 ARID4B SIN3A DMAP1 ZNF2 YY1 OTUD3 EMC1 TMCO4 IFFO2 ALDH4A1 ENSG00000255275
GH01F019859 1.3 Ensembl ENCODE 21.3 -20.6 -20635 2.9 HDGF PKNOX1 ARNT MLX CREB3L1 SIN3A ARID4B ZNF766 FOS KLF13 OTUD3 ENSG00000235434 RNF186 TMCO4 PIR53184 GC01M019829
GH01F019869 1 ENCODE 21.6 -11.6 -11605 1.4 HDGF PKNOX1 ATF1 ARNT ELK1 GATA2 NCOA1 CREB3 MBD2 MEF2D OTUD3 PIR53184 GC01M019829
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around OTUD3 on UCSC Golden Path with GeneCards custom track

Promoters for OTUD3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000163855 1098 1601 PKNOX1 CREB3L1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF143 DEK

Genomic Location for OTUD3 Gene

Chromosome:
1
Start:
19,881,702 bp from pter
End:
19,912,945 bp from pter
Size:
31,244 bases
Orientation:
Plus strand

Genomic View for OTUD3 Gene

Genes around OTUD3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OTUD3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OTUD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OTUD3 Gene

Proteins for OTUD3 Gene

  • Protein details for OTUD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q5T2D3-OTUD3_HUMAN
    Recommended name:
    OTU domain-containing protein 3
    Protein Accession:
    Q5T2D3
    Secondary Accessions:
    • O75047

    Protein attributes for OTUD3 Gene

    Size:
    398 amino acids
    Molecular mass:
    45124 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA32304.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for OTUD3 Gene

neXtProt entry for OTUD3 Gene

Post-translational modifications for OTUD3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for OTUD3 Gene

No data available for DME Specific Peptides for OTUD3 Gene

Domains & Families for OTUD3 Gene

Gene Families for OTUD3 Gene

Protein Domains for OTUD3 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for OTUD3 Gene

Graphical View of Domain Structure for InterPro Entry

Q5T2D3

UniProtKB/Swiss-Prot:

OTUD3_HUMAN :
  • The UBA-like domain has no influence on ubiquitin hydrolysis.
Domain:
  • The UBA-like domain has no influence on ubiquitin hydrolysis.
  • Specificity is given by the S1 ubiquitin-binding site within the OTU domain composed of the Cys-, His- and Variable-loops.
  • Contains 1 OTU domain.
  • Contains 1 UBA-like domain.
genes like me logo Genes that share domains with OTUD3: view

Function for OTUD3 Gene

Molecular function for OTUD3 Gene

UniProtKB/Swiss-Prot CatalyticActivity:
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
UniProtKB/Swiss-Prot Function:
Deubiquitinating enzyme that hydrolyzes Lys-6- and Lys-11-linked polyubiquitin. Also hydrolyzes heterotypic (mixed and branched) and homotypic chains.

Enzyme Numbers (IUBMB) for OTUD3 Gene

Gene Ontology (GO) - Molecular Function for OTUD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 23827681
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity IEA --
genes like me logo Genes that share ontologies with OTUD3: view
genes like me logo Genes that share phenotypes with OTUD3: view

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for OTUD3

Flow Cytometry Products

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for OTUD3 Gene

Localization for OTUD3 Gene

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 OTUD3 gene
Compartment Confidence
cytosol 5
nucleus 4
cytoskeleton 2

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for OTUD3 Gene

Pathways & Interactions for OTUD3 Gene

genes like me logo Genes that share pathways with OTUD3: view

Pathways by source for OTUD3 Gene

Interacting Proteins for OTUD3 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
http://string-db.org/version_10/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000364261%0d%0a9606.ENSP00000344818%0d%0a
Selected Interacting proteins: ENSP00000364261 Q5T2D3-OTUD3_HUMAN for OTUD3 Gene via STRING IID

Gene Ontology (GO) - Biological Process for OTUD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0035871 protein K11-linked deubiquitination IDA 23827681
GO:0044313 protein K6-linked deubiquitination IDA 23827681
genes like me logo Genes that share ontologies with OTUD3: view

No data available for SIGNOR curated interactions for OTUD3 Gene

Transcripts for OTUD3 Gene

Unigene Clusters for OTUD3 Gene

OTU domain containing 3:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for OTUD3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for OTUD3 Gene

No ASD Table

Relevant External Links for OTUD3 Gene

GeneLoc Exon Structure for
OTUD3
ECgene alternative splicing isoforms for
OTUD3

Expression for OTUD3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for OTUD3 Gene

Protein differential expression in normal tissues from HIPED for OTUD3 Gene

This gene is overexpressed in Testis (35.0) and Adipocyte (31.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for OTUD3 Gene



Protein tissue co-expression partners for OTUD3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of OTUD3 Gene:

OTUD3

SOURCE GeneReport for Unigene cluster for OTUD3 Gene:

Hs.374987
genes like me logo Genes that share expression patterns with OTUD3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for OTUD3 Gene

Orthologs for OTUD3 Gene

This gene was present in the common ancestor of chordates.

Orthologs for OTUD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia OTUD3 34 35
  • 99.25 (n)
dog
(Canis familiaris)
Mammalia OTUD3 34 35
  • 91.96 (n)
cow
(Bos Taurus)
Mammalia OTUD3 34 35
  • 90.26 (n)
mouse
(Mus musculus)
Mammalia Otud3 34 16 35
  • 84.43 (n)
rat
(Rattus norvegicus)
Mammalia Otud3 34
  • 84.23 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 35
  • 83 (a)
OneToMany
-- 35
  • 73 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 79 (a)
OneToMany
-- 35
  • 67 (a)
OneToMany
chicken
(Gallus gallus)
Aves OTUD3 34 35
  • 69.06 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia otud3 34
  • 64.84 (n)
zebrafish
(Danio rerio)
Actinopterygii otud3 34 35
  • 58.82 (n)
Species where no ortholog for OTUD3 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)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • 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)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • lizard (Anolis carolinensis)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for OTUD3 Gene

ENSEMBL:
Gene Tree for OTUD3 (if available)
TreeFam:
Gene Tree for OTUD3 (if available)

Paralogs for OTUD3 Gene

No data available for Paralogs for OTUD3 Gene

Variants for OTUD3 Gene

Sequence variations from dbSNP and Humsavar for OTUD3 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1046548 -- 19,911,850(+) ACCGC(A/G)CACCG utr-variant-3-prime
rs10492999 -- 19,911,267(+) TTGCC(A/G)TTCTC utr-variant-3-prime
rs10537339 -- 19,896,371(+) TCATA(-/AT)ATATA intron-variant
rs10595134 -- 19,896,383(+) tatat(-/AT)tatta intron-variant
rs10733026 -- 19,890,130(+) AGTTT(A/G)ATGAC intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for OTUD3 Gene

Variant ID Type Subtype PubMed ID
nsv1003518 CNV loss 25217958
nsv460717 CNV loss 19166990
nsv545730 CNV loss 21841781

Variation tolerance for OTUD3 Gene

Residual Variation Intolerance Score: 66% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.32; 63.04% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for OTUD3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
OTUD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OTUD3 Gene

Disorders for OTUD3 Gene

Relevant External Links for OTUD3

Genetic Association Database (GAD)
OTUD3
Human Genome Epidemiology (HuGE) Navigator
OTUD3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
OTUD3

No disorders were found for OTUD3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for OTUD3 Gene

Publications for OTUD3 Gene

  1. OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis. (PMID: 23827681) Mevissen T.E. … Komander D. (Cell 2013) 2 3 4 64
  2. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N. … Ohara O. (DNA Res. 1997) 2 3 4 64
  3. Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL). (PMID: 20228798) Franke A. … Schreiber S. (Nat. Genet. 2010) 3 46 64
  4. Genome-wide association identifies multiple ulcerative colitis susceptibility loci. (PMID: 20228799) McGovern D.P. … Seielstad M. (Nat. Genet. 2010) 3 46 64
  5. Ulcerative colitis-risk loci on chromosomes 1p36 and 12q15 found by genome-wide association study. (PMID: 19122664) Silverberg M.S. … Duerr R.H. (Nat. Genet. 2009) 3 46 64

Products for OTUD3 Gene

Sources for OTUD3 Gene

Content
Loading form....