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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 Metabolism of proteins and Protein ubiquitination. Gene Ontology (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.

Additional gene information for OTUD3 Gene

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

Genomics for OTUD3 Gene

GeneHancer (GH) Regulatory Elements for OTUD3 Gene

Promoters and enhancers for OTUD3 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
GH01I019881 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 562.5 +1.3 1334 2.7 PKNOX1 SMAD1 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B ZNF213 ZNF207 OTUD3 HP1BP3 UBR4 EMC1 ENSG00000226664 LOC105376823
GH01I020474 Promoter/Enhancer 2.8 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 20.7 +599.4 599379 13.8 MLX DMAP1 YY1 SLC30A9 ZNF213 ZNF143 ZNF548 SP3 NFYC ZFP41 CAMK2N1 ENSG00000284743 HP1BP3 DDOST OTUD3 MUL1 FAM43B NBPF2P ENSG00000284641
GH01I019310 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE 22.3 -568.2 -568211 6.7 HDGF ARNT ARID4B SIN3A YBX1 DMAP1 IRF4 POLR2B ZNF213 E2F8 AKR7A2 PQLC2 UBR4 OTUD3 AKR7L EMC1 ENSG00000272084 GC01M019319 GC01M019320
GH01I019812 Promoter/Enhancer 1.7 EPDnew Ensembl ENCODE dbSUPER 18.4 -66.6 -66642 5.3 ELF3 FOXA2 NFIB ZNF133 ARID4B FEZF1 RAD21 ZSCAN9 RARA YY1 ENSG00000235434 RNF186 OTUD3 EMC1 TMCO4
GH01I019432 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 10.1 -429.9 -429861 39.4 HDGF PKNOX1 FOXA2 MLX ARNT ZFP64 ARID4B SIN3A FEZF1 DMAP1 CAPZB EMC1 NBL1 RNU4-28P HTR6 AKR7A2 OTUD3 AKR7A3 PQLC2 UBR4
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around OTUD3 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the OTUD3 gene promoter:

Genomic Locations for OTUD3 Gene

Genomic Locations for OTUD3 Gene
chr1:19,881,702-19,912,945
(GRCh38/hg38)
Size:
31,244 bases
Orientation:
Plus strand
chr1:20,208,888-20,239,438
(GRCh37/hg19)

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

No Post-translational modifications

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

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted intracellular proteins

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.
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

Phenotypes From GWAS Catalog 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 TAS --
GO:0005515 protein binding IPI 26280536
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
GO:0016787 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

Clone Products

  • Addgene plasmids for OTUD3

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

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Intermediate filaments (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for OTUD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm IDA 26280536
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with OTUD3: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot 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 2 interactants - click image to see details)
http://version10.5.string-db.org/api/image/networkList?limit=0&targetmode=proteins&caller_identity=gene_cards&network_flavor=evidence&identifiers=9606.ENSP00000364261%0d%0a9606.ENSP00000344818%0d%0a9606.ENSP00000361021%0d%0a
Selected Interacting proteins: Q5T2D3-OTUD3_HUMAN ENSP00000364261 for OTUD3 Gene via IID UniProtKB STRING

Gene Ontology (GO) - Biological Process for OTUD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0016579 protein deubiquitination TAS --
GO:0035871 protein K11-linked deubiquitination IDA 23827681
GO:0044313 protein K6-linked deubiquitination IDA 23827681
GO:0050821 protein stabilization IMP 26280536
genes like me logo Genes that share ontologies with OTUD3: view

No data available for SIGNOR curated interactions for OTUD3 Gene

Drugs & Compounds for OTUD3 Gene

No Compound Related Data Available

Transcripts for OTUD3 Gene

Unigene Clusters for OTUD3 Gene

OTU domain containing 3:
Representative Sequences:

Clone Products

  • Addgene plasmids for OTUD3

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 CGAP 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

Evidence on tissue expression from TISSUES for OTUD3 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with OTUD3: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer 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 33 34
  • 99.25 (n)
dog
(Canis familiaris)
Mammalia OTUD3 33 34
  • 91.96 (n)
cow
(Bos Taurus)
Mammalia OTUD3 33 34
  • 90.26 (n)
mouse
(Mus musculus)
Mammalia Otud3 33 16 34
  • 84.43 (n)
rat
(Rattus norvegicus)
Mammalia Otud3 33
  • 84.23 (n)
oppossum
(Monodelphis domestica)
Mammalia -- 34
  • 83 (a)
OneToMany
-- 34
  • 73 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 79 (a)
OneToMany
-- 34
  • 67 (a)
OneToMany
chicken
(Gallus gallus)
Aves OTUD3 33 34
  • 69.06 (n)
tropical clawed frog
(Silurana tropicalis)
Amphibia otud3 33
  • 64.84 (n)
zebrafish
(Danio rerio)
Actinopterygii otud3 33 34
  • 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 Variation AA Info Type
rs1000159544 -- 19,887,390(+) C/T intron_variant
rs1000250696 -- 19,904,142(+) G/A intron_variant
rs1000379440 -- 19,893,955(+) C/T intron_variant
rs1000401320 -- 19,912,351(+) C/A/T 3_prime_UTR_variant
rs1000456536 -- 19,880,899(+) G/A upstream_transcript_variant

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)

Additional Variant Information 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

Additional Disease Information for OTUD3

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

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 TE … Komander D (Cell 2013) 2 3 4 58
  2. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1997) 2 3 4 58
  3. Genome-wide association identifies multiple ulcerative colitis susceptibility loci. (PMID: 20228799) McGovern DP … Seielstad M (Nature genetics 2010) 3 44 58
  4. Genome-wide association study for ulcerative colitis identifies risk loci at 7q22 and 22q13 (IL17REL). (PMID: 20228798) Franke A … Schreiber S (Nature genetics 2010) 3 44 58
  5. Ulcerative colitis-risk loci on chromosomes 1p36 and 12q15 found by genome-wide association study. (PMID: 19122664) Silverberg MS … Duerr RH (Nature genetics 2009) 3 44 58

Products for OTUD3 Gene

  • Addgene plasmids for OTUD3

Sources for OTUD3 Gene

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