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

Aliases for OTUD4 Gene

Aliases for OTUD4 Gene

  • OTU Deubiquitinase 4 2 3 5
  • OTU Domain-Containing Protein 4 3
  • HIV-1 Induced Protein HIN-1 3
  • HIV-1-Induced Protein HIN-1 4
  • OTU Domain Containing 4 2
  • EC 3.4.19.12 4
  • KIAA1046 4
  • HSHIN1 3
  • DUBA6 3
  • HIN-1 4
  • HIN1 3

External Ids for OTUD4 Gene

Previous GeneCards Identifiers for OTUD4 Gene

  • GC04M146413
  • GC04M146274
  • GC04M146054
  • GC04M141787

Summaries for OTUD4 Gene

Entrez Gene Summary for OTUD4 Gene

  • Alternatively spliced transcript variants have been found for this gene. The smaller protein isoform encoded by the shorter transcript variant is found only in HIV-1 infected cells. [provided by RefSeq, Jul 2010]

GeneCards Summary for OTUD4 Gene

OTUD4 (OTU Deubiquitinase 4) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include thiol-dependent ubiquitin-specific protease activity. An important paralog of this gene is ALG13.

UniProtKB/Swiss-Prot for OTUD4 Gene

  • Deubiquitinase which hydrolyzes the isopeptide bond between the ubiquitin C-terminus and the lysine epsilon-amino group of the target protein (PubMed:23827681, PubMed:25944111, PubMed:29395066). May negatively regulate inflammatory and pathogen recognition signaling in innate immune response. Upon phosphorylation at Ser-202 and Ser-204 residues, via IL-1 receptor and Toll-like receptor signaling pathway, specifically deubiquitinates Lys-63-polyubiquitinated MYD88 adapter protein triggering down-regulation of NF-kappa-B-dependent transcription of inflammatory mediators (PubMed:29395066). Independently of the catalytic activity, acts as a scaffold for alternative deubiquitinases to assemble specific deubiquitinase-substrate complexes. Associates with USP7 and USP9X deubiquitinases to stabilize alkylation repair enzyme ALKBH3, thereby promoting the repair of alkylated DNA lesions (PubMed:25944111).

Gene Wiki entry for OTUD4 Gene

Additional gene information for OTUD4 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for OTUD4 Gene

Genomics for OTUD4 Gene

GeneHancer (GH) Regulatory Elements for OTUD4 Gene

Promoters and enhancers for OTUD4 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
GH04J145175 Promoter/Enhancer 2.5 EPDnew FANTOM5 Ensembl ENCODE dbSUPER 651.9 +0.6 647 7.7 HDGF PKNOX1 SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 IRF4 YY1 OTUD4 LSM6 ANAPC10 ABCE1 MMAA GC04M145156
GH04J145096 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 11 +81.8 81764 4 PKNOX1 SMAD1 ARNT ZFP64 ARID4B SIN3A DMAP1 ZNF2 IRF4 YY1 ANAPC10 ABCE1 ENSG00000248356 OTUD4
GH04J145812 Enhancer 1 ENCODE dbSUPER 21.3 -632.9 -632897 1.6 NCOA3 MEIS2 PKNOX1 JUN ZFP64 MAX SIN3A CEBPG BRCA1 ZNF697 OTUD4 ENSG00000248356 SLC10A7 LSM6 ENSG00000279481 GC04M145759 ZNF827
GH04J145769 Enhancer 0.6 Ensembl 21.3 -589.7 -589740 0.6 ZNF654 ZNF680 CEBPB ZNF140 ZC3H11A CEBPG REST ZNF623 ZNF781 ZNF697 OTUD4 ENSG00000248356 SLC10A7 LSM6 GC04M145759 ENSG00000279481 C4orf51 ZNF827
GH04J145530 Enhancer 0.9 Ensembl ENCODE dbSUPER 9.8 -352.3 -352309 3.5 ZNF121 POLR2A MAFK CHD2 SMAD1-AS2 SMAD1 OTUD4 MMAA SMAD1-AS1 LOC285422
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around OTUD4 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the OTUD4 gene promoter:
  • GATA-2
  • Tal-1beta
  • E47
  • N-Myc
  • Meis-1
  • p300
  • Sox9
  • HOXA9
  • HOXA9B
  • Meis-1b

Genomic Locations for OTUD4 Gene

Genomic Locations for OTUD4 Gene
chr4:145,110,838-145,180,161
(GRCh38/hg38)
Size:
69,324 bases
Orientation:
Minus strand
chr4:146,031,990-146,101,313
(GRCh37/hg19)
Size:
69,324 bases
Orientation:
Minus strand

Genomic View for OTUD4 Gene

Genes around OTUD4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
OTUD4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for OTUD4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for OTUD4 Gene

Proteins for OTUD4 Gene

  • Protein details for OTUD4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q01804-OTUD4_HUMAN
    Recommended name:
    OTU domain-containing protein 4
    Protein Accession:
    Q01804
    Secondary Accessions:
    • B4DYS4
    • Q147U2
    • Q1ZYK1
    • Q6PG39
    • Q96MQ5
    • Q9NT94
    • Q9UPV6

    Protein attributes for OTUD4 Gene

    Size:
    1114 amino acids
    Molecular mass:
    124045 Da
    Quaternary structure:
    • Interacts with MYD88; the interaction is direct (PubMed:29395066). Interacts with ALKBH3; the interaction is direct (PubMed:25944111). Interacts with USP7; the interaction is direct (PubMed:25944111). Interacts with USP9X; the interaction is direct (PubMed:25944111).
    SequenceCaution:
    • Sequence=AAH57242.2; Type=Miscellaneous discrepancy; Note=Sequence of unknown origin in the N-terminal part.; Evidence={ECO:0000305}; Sequence=BAA82998.2; Type=Miscellaneous discrepancy; Note=Intron retention.; Evidence={ECO:0000305}; Sequence=BAB71229.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for OTUD4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for OTUD4 Gene

Post-translational modifications for OTUD4 Gene

  • Phosphorylated on Ser-202 and Ser-204 likely by CSNK2A1-CSNK2A2 serine/threonine-protein kinase complex. Activates Lys-63-specific deubiquitinase activity.
  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for OTUD4 Gene

Domains & Families for OTUD4 Gene

Gene Families for OTUD4 Gene

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

Protein Domains for OTUD4 Gene

InterPro:
Blocks:
ProtoNet:

Suggested Antigen Peptide Sequences for OTUD4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with OTUD4: view

No data available for UniProtKB/Swiss-Prot for OTUD4 Gene

Function for OTUD4 Gene

Molecular function for OTUD4 Gene

UniProtKB/Swiss-Prot Function:
Deubiquitinase which hydrolyzes the isopeptide bond between the ubiquitin C-terminus and the lysine epsilon-amino group of the target protein (PubMed:23827681, PubMed:25944111, PubMed:29395066). May negatively regulate inflammatory and pathogen recognition signaling in innate immune response. Upon phosphorylation at Ser-202 and Ser-204 residues, via IL-1 receptor and Toll-like receptor signaling pathway, specifically deubiquitinates Lys-63-polyubiquitinated MYD88 adapter protein triggering down-regulation of NF-kappa-B-dependent transcription of inflammatory mediators (PubMed:29395066). Independently of the catalytic activity, acts as a scaffold for alternative deubiquitinases to assemble specific deubiquitinase-substrate complexes. Associates with USP7 and USP9X deubiquitinases to stabilize alkylation repair enzyme ALKBH3, thereby promoting the repair of alkylated DNA lesions (PubMed:25944111).
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 EnzymeRegulation:
Phosphorylation on Ser-202 and Ser-204 induces Lys-63-specific deubiquitinase activity.
UniProtKB/Swiss-Prot Induction:
By HIV-1 insertion.

Enzyme Numbers (IUBMB) for OTUD4 Gene

Phenotypes From GWAS Catalog for OTUD4 Gene

Gene Ontology (GO) - Molecular Function for OTUD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22681889
GO:0004843 thiol-dependent ubiquitin-specific protease activity IDA 23827681
GO:0005515 protein binding IPI 25416956
GO:0008233 peptidase activity IEA --
GO:0008234 cysteine-type peptidase activity IEA --
genes like me logo Genes that share ontologies with OTUD4: view
genes like me logo Genes that share phenotypes with OTUD4: view

Animal Model Products

miRNA for OTUD4 Gene

miRTarBase miRNAs that target OTUD4

Clone Products

  • Addgene plasmids for OTUD4

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for OTUD4 Gene

Localization for OTUD4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for OTUD4 Gene

Cytoplasm. Nucleus. Note=Primarily cytoplasmic. {ECO:0000269 PubMed:25944111}.

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 OTUD4 gene
Compartment Confidence
nucleus 3
cytosol 3

Subcellular locations from the

Human Protein Atlas (HPA)

No data available for Gene Ontology (GO) - Cellular Components for OTUD4 Gene

Pathways & Interactions for OTUD4 Gene

SuperPathways for OTUD4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for OTUD4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006508 proteolysis IEA --
GO:0034122 negative regulation of toll-like receptor signaling pathway IDA 29395066
GO:0070536 protein K63-linked deubiquitination IDA 29395066
GO:0071108 protein K48-linked deubiquitination IDA 23827681
GO:1901537 positive regulation of DNA demethylation IDA 25944111
genes like me logo Genes that share ontologies with OTUD4: view

No data available for Pathways by source and SIGNOR curated interactions for OTUD4 Gene

Drugs & Compounds for OTUD4 Gene

No Compound Related Data Available

Transcripts for OTUD4 Gene

Unigene Clusters for OTUD4 Gene

OTU domain containing 4:
Representative Sequences:

Clone Products

  • Addgene plasmids for OTUD4

Alternative Splicing Database (ASD) splice patterns (SP) for OTUD4 Gene

No ASD Table

Relevant External Links for OTUD4 Gene

GeneLoc Exon Structure for
OTUD4
ECgene alternative splicing isoforms for
OTUD4

Expression for OTUD4 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for OTUD4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for OTUD4 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (13.2), Fetal ovary (10.2), Tlymphocyte (7.8), and CD8 Tcells (7.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for OTUD4 Gene



Protein tissue co-expression partners for OTUD4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of OTUD4 Gene:

OTUD4

SOURCE GeneReport for Unigene cluster for OTUD4 Gene:

Hs.270851

Evidence on tissue expression from TISSUES for OTUD4 Gene

  • Nervous system(4.3)
  • Liver(4.2)
genes like me logo Genes that share expression patterns with OTUD4: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for OTUD4 Gene

Orthologs for OTUD4 Gene

This gene was present in the common ancestor of animals.

Orthologs for OTUD4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia OTUD4 34 33
  • 99.65 (n)
OneToOne
dog
(Canis familiaris)
Mammalia OTUD4 34 33
  • 91.37 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Otud4 16 34 33
  • 88.21 (n)
rat
(Rattus norvegicus)
Mammalia Otud4 33
  • 86.97 (n)
cow
(Bos Taurus)
Mammalia OTUD4 34 33
  • 85.92 (n)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 68 (a)
OneToMany
-- 34
  • 63 (a)
OneToMany
-- 34
  • 58 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia OTUD4 34
  • 66 (a)
OneToOne
chicken
(Gallus gallus)
Aves OTUD4 34 33
  • 68.67 (n)
OneToOne
lizard
(Anolis carolinensis)
Reptilia OTUD4 34
  • 45 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia otud4 33
  • 59.72 (n)
Str.19581 33
zebrafish
(Danio rerio)
Actinopterygii otud4 34
  • 15 (a)
ManyToMany
fruit fly
(Drosophila melanogaster)
Insecta CG3251 34
  • 20 (a)
ManyToMany
otu 34
  • 18 (a)
ManyToMany
Species where no ortholog for OTUD4 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)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • 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 OTUD4 Gene

ENSEMBL:
Gene Tree for OTUD4 (if available)
TreeFam:
Gene Tree for OTUD4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for OTUD4: view image

Paralogs for OTUD4 Gene

Paralogs for OTUD4 Gene

(1) SIMAP similar genes for OTUD4 Gene using alignment to 6 proteins:

  • OTUD4_HUMAN
  • A0PJA7_HUMAN
  • D6RA27_HUMAN
  • D6RI06_HUMAN
  • G3V0I6_HUMAN
  • L8EAV3_HUMAN

Pseudogenes.org Pseudogenes for OTUD4 Gene

genes like me logo Genes that share paralogs with OTUD4: view

Variants for OTUD4 Gene

Sequence variations from dbSNP and Humsavar for OTUD4 Gene

SNP ID Clin Chr 04 pos Variation AA Info Type
rs148857745 uncertain-significance, Variant of unknown significance 145,150,579(-) C/A coding_sequence_variant, genic_downstream_transcript_variant, missense_variant
rs147253069 uncertain-significance, not specified 145,137,772(-) A/T coding_sequence_variant, genic_downstream_transcript_variant, synonymous_variant
rs36225458 uncertain-significance, not specified 145,159,551(-) G/C coding_sequence_variant, missense_variant
rs369308038 uncertain-significance, not specified 145,155,463(-) C/T coding_sequence_variant, genic_downstream_transcript_variant, missense_variant
rs1000040729 -- 145,173,252(-) G/A/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for OTUD4 Gene

Variant ID Type Subtype PubMed ID
nsv1073805 CNV deletion 25765185
nsv966326 CNV duplication 23825009

Variation tolerance for OTUD4 Gene

Residual Variation Intolerance Score: 43.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.49; 43.58% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for OTUD4 Gene

Human Gene Mutation Database (HGMD)
OTUD4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
OTUD4

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for OTUD4 Gene

Disorders for OTUD4 Gene

Additional Disease Information for OTUD4

No disorders were found for OTUD4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for OTUD4 Gene

Publications for OTUD4 Gene

  1. HIV-1 promotor insertion revealed by selective detection of chimeric provirus-host gene transcripts. (PMID: 1475186) Raineri I … Senn HP (Nucleic acids research 1992) 2 3 4 58
  2. OTUD4 Is a Phospho-Activated K63 Deubiquitinase that Regulates MyD88-Dependent Signaling. (PMID: 29395066) Zhao Y … Mosammaparast N (Molecular cell 2018) 3 4 58
  3. Noncanonical regulation of alkylation damage resistance by the OTUD4 deubiquitinase. (PMID: 25944111) Zhao Y … Mosammaparast N (The EMBO journal 2015) 3 4 58
  4. OTU deubiquitinases reveal mechanisms of linkage specificity and enable ubiquitin chain restriction analysis. (PMID: 23827681) Mevissen TE … Komander D (Cell 2013) 3 4 58
  5. Ataxia, dementia, and hypogonadotropism caused by disordered ubiquitination. (PMID: 23656588) Margolin DH … Seminara SB (The New England journal of medicine 2013) 3 4 58

Products for OTUD4 Gene

Sources for OTUD4 Gene

Content
Loading form....