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Aliases for USP3 Gene

Aliases for USP3 Gene

  • Ubiquitin Specific Peptidase 3 2 3
  • Ubiquitin-Specific-Processing Protease 3 3 4
  • Deubiquitinating Enzyme 3 3 4
  • Ubiquitin Thioesterase 3 3 4
  • Ubiquitin Carboxyl-Terminal Hydrolase 3 3
  • Ubiquitin Specific Protease 3 2
  • Ubiquitin Thiolesterase 3 3
  • EC 3.4.19.12 4
  • EC 3.1.2.15 63
  • SIH003 3
  • UBP 3

External Ids for USP3 Gene

Previous GeneCards Identifiers for USP3 Gene

  • GC15P059583
  • GC15P056887
  • GC15P061375
  • GC15P061512
  • GC15P061511
  • GC15P061582
  • GC15P063796
  • GC15P040621

Summaries for USP3 Gene

GeneCards Summary for USP3 Gene

USP3 (Ubiquitin Specific Peptidase 3) is a Protein Coding gene. Among its related pathways are Ubiquitin-Proteasome Dependent Proteolysis. GO annotations related to this gene include ubiquitin thiolesterase activity and ubiquitin-specific protease activity. An important paralog of this gene is USP49.

UniProtKB/Swiss-Prot for USP3 Gene

  • Hydrolase that deubiquitinates monoubiquitinated target proteins such as histone H2A and H2B. Required for proper progression through S phase and subsequent mitotic entry. May regulate the DNA damage response (DDR) checkpoint through deubiquitination of H2A at DNA damage sites. Associates with the chromatin.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP3 Gene

Genomics for USP3 Gene

Regulatory Elements for USP3 Gene

Transcription factor binding sites by QIAGEN in the USP3 gene promoter:

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for USP3 Gene

Start:
63,504,511 bp from pter
End:
63,594,640 bp from pter
Size:
90,130 bases
Orientation:
Plus strand

Genomic View for USP3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for USP3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP3 Gene

Proteins for USP3 Gene

  • Protein details for USP3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y6I4-UBP3_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 3
    Protein Accession:
    Q9Y6I4
    Secondary Accessions:
    • B4DVU5
    • F5H1A6
    • Q8WVD0

    Protein attributes for USP3 Gene

    Size:
    520 amino acids
    Molecular mass:
    58897 Da
    Quaternary structure:
    • Interacts (via UBP-type domain) with H2A; the interaction is less efficient than with monoubiquitinated H2A.
    SequenceCaution:
    • Sequence=AAD42992.1; Type=Frameshift; Positions=265, 274, 299; Evidence={ECO:0000305};

    Alternative splice isoforms for USP3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP3 Gene

Proteomics data for USP3 Gene at MOPED

Selected DME Specific Peptides for USP3 Gene

Post-translational modifications for USP3 Gene

  • Ubiquitination at Lys107, Lys354, and Lys423
  • Modification sites at PhosphoSitePlus

Antibody Products

Domains for USP3 Gene

Gene Families for USP3 Gene

HGNC:
  • USP :Ubiquitin-specific peptidases

Graphical View of Domain Structure for InterPro Entry

Q9Y6I4

UniProtKB/Swiss-Prot:

UBP3_HUMAN :
  • Q9Y6I4
Domain:
  • Both protease activity and an intact zinc finger are required for H2A monodeubiquitination
  • Contains 1 USP domain.
Family:
  • Belongs to the peptidase C19 family. USP3 subfamily.
Similarity:
  • Contains 1 UBP-type zinc finger.
genes like me logo Genes that share domains with USP3: view

Function for USP3 Gene

Molecular function for USP3 Gene

GENATLAS Biochemistry:
ubiquitin specific protease 3,with two transcripts,both widely expressed at a low level and highly expressed in pancreas,cleaving a ubiquitin-proline bond,deubiquitin enzyme family
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:
Hydrolase that deubiquitinates monoubiquitinated target proteins such as histone H2A and H2B. Required for proper progression through S phase and subsequent mitotic entry. May regulate the DNA damage response (DDR) checkpoint through deubiquitination of H2A at DNA damage sites. Associates with the chromatin.

Enzyme Numbers (IUBMB) for USP3 Gene

Gene Ontology (GO) - Molecular Function for USP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001046 core promoter sequence-specific DNA binding IEA --
GO:0003682 chromatin binding IEA --
GO:0004197 cysteine-type endopeptidase activity IBA --
GO:0004221 ubiquitin thiolesterase activity --
GO:0004843 ubiquitin-specific protease activity TAS 10480896
genes like me logo Genes that share ontologies with USP3: view

Phenotypes for USP3 Gene

genes like me logo Genes that share phenotypes with USP3: view

Animal Model Products

miRNA for USP3 Gene

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for USP3

In Situ Assay Products

Flow Cytometry Products

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for USP3 Gene

Localization for USP3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP3 Gene

Nucleus. Note=Localizes preferentially with monoubiquitinated H2A to chromatin.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for USP3 Gene COMPARTMENTS Subcellular localization image for USP3 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for USP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IDA 17980597
GO:0005634 nucleus --
genes like me logo Genes that share ontologies with USP3: view

Pathways for USP3 Gene

genes like me logo Genes that share pathways with USP3: view

Pathways by source for USP3 Gene

1 Qiagen pathway for USP3 Gene

PCR Array Products

  • Pathway & Disease-focused RT² Profiler PCR Arrays

Gene Ontology (GO) - Biological Process for USP3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription from RNA polymerase II promoter IEA --
GO:0000278 mitotic cell cycle IMP 17980597
GO:0006281 DNA repair IMP 17980597
GO:0006355 regulation of transcription, DNA-templated IBA --
GO:0006511 ubiquitin-dependent protein catabolic process --
genes like me logo Genes that share ontologies with USP3: view

Compounds for USP3 Gene

(1) HMDB Compounds for USP3 Gene

Compound Synonyms Cas Number PubMed IDs
Water
  • Dihydrogen oxide
7732-18-5
genes like me logo Genes that share compounds with USP3: view

Transcripts for USP3 Gene

Unigene Clusters for USP3 Gene

Ubiquitin specific peptidase 3:
Representative Sequences:

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for USP3

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for USP3 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12a · 12b ^ 13 ^ 14a · 14b ^ 15 ^ 16 ^ 17a ·
SP1: - - - - - - -
SP2: - - - - - - -
SP3: - - - - - - - -
SP4: - - -
SP5: - - - - - -
SP6: - - - - - - -
SP7: - - - - -
SP8: - - - -
SP9: - - - - - - - - - - - - -
SP10: - -
SP11: -
SP12: -
SP13:
SP14:

ExUns: 17b ^ 18a · 18b ^ 19 ^ 20a · 20b · 20c · 20d
SP1: -
SP2: -
SP3: -
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10: -
SP11: -
SP12:
SP13:
SP14: -

Relevant External Links for USP3 Gene

GeneLoc Exon Structure for
USP3
ECgene alternative splicing isoforms for
USP3

Expression for USP3 Gene

mRNA expression in normal human tissues for USP3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for USP3 Gene

This gene is overexpressed in Whole Blood (6.0).

Protein differential expression in normal tissues for USP3 Gene

This gene is overexpressed in Monocytes (17.0), Pancreatic juice (16.9), Blymphocyte (8.9), and Peripheral blood mononuclear cells (7.2).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for USP3 Gene

SOURCE GeneReport for Unigene cluster for USP3 Gene Hs.458499

mRNA Expression by UniProt/SwissProt for USP3 Gene

Q9Y6I4-UBP3_HUMAN
Tissue specificity: Expressed in all tissues examined, with strongest expression in pancreas
genes like me logo Genes that share expressions with USP3: view

Expression partners for USP3 Gene

In Situ Assay Products

Orthologs for USP3 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for USP3 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia USP3 35
  • 94.28 (n)
  • 97.03 (a)
USP3 36
  • 97 (a)
OneToOne
dog
(Canis familiaris)
Mammalia USP3 35
  • 94.94 (n)
  • 98.27 (a)
USP3 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Usp3 35
  • 90.77 (n)
  • 96.54 (a)
Usp3 16
Usp3 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia USP3 35
  • 99.39 (n)
  • 99.39 (a)
USP3 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Usp3 35
  • 90.06 (n)
  • 95.38 (a)
oppossum
(Monodelphis domestica)
Mammalia USP3 36
  • 97 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia USP3 36
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves USP3 35
  • 86.79 (n)
  • 95.77 (a)
USP3 36
  • 96 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia USP3 36
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.18577 35
usp3 35
  • 75.95 (n)
  • 88.55 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.15490 35
zebrafish
(Danio rerio)
Actinopterygii usp3 35
  • 70.64 (n)
  • 74.23 (a)
wufe50h06 35
usp3 36
  • 71 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP008805 35
  • 54.91 (n)
  • 53.68 (a)
worm
(Caenorhabditis elegans)
Secernentea usp-3 35
  • 49.8 (n)
  • 41.65 (a)
usp-3 36
  • 32 (a)
OneToOne
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes DOA4 36
  • 12 (a)
ManyToMany
UBP5 36
  • 14 (a)
ManyToMany
Species with no ortholog for USP3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • 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)

Evolution for USP3 Gene

ENSEMBL:
Gene Tree for USP3 (if available)
TreeFam:
Gene Tree for USP3 (if available)

Paralogs for USP3 Gene

Paralogs for USP3 Gene

genes like me logo Genes that share paralogs with USP3: view

Variants for USP3 Gene

Sequence variations from dbSNP and Humsavar for USP3 Gene

SNP ID Clin Chr 15 pos Sequence Context AA Info Type MAF
rs289816 -- 63,502,762(-) ATCTC(C/T)CCATG upstream-variant-2KB
rs289817 -- 63,503,476(-) GGGCT(A/C/G/T)CTTGT upstream-variant-2KB
rs289818 -- 63,503,638(+) ATCCA(A/G)TCTCC upstream-variant-2KB
rs289819 -- 63,504,253(-) ACCTA(A/C/G/T)GTGGT upstream-variant-2KB
rs982077 -- 63,531,102(+) CTTTC(A/G)TGTTC intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USP3 Gene

Variant ID Type Subtype PubMed ID
nsv833034 CNV Loss 17160897

Relevant External Links for USP3 Gene

HapMap Linkage Disequilibrium report
USP3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for USP3 Gene

Disorders for USP3 Gene

(1) University of Copenhagen DISEASES for USP3 Gene

Relevant External Links for USP3

Genetic Association Database (GAD)
USP3
Human Genome Epidemiology (HuGE) Navigator
USP3
genes like me logo Genes that share disorders with USP3: view

No data available for MalaCards , OMIM , UniProtKB/Swiss-Prot , Novoseek inferred disease relationships and Genatlas for USP3 Gene

Publications for USP3 Gene

  1. Characterization and chromosomal localization of USP3, a novel human ubiquitin-specific protease. (PMID: 10480896) Sloper-Mould K.E. … Baker R.T. (J. Biol. Chem. 1999) 3 4 23
  2. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente X.S. … Lopez-Otin C. (Nat. Rev. Genet. 2003) 2 3
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  4. Human USP3 is a chromatin modifier required for S phase progression and genome stability. (PMID: 17980597) Nicassio F. … Citterio E. (Curr. Biol. 2007) 3 4
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 48

Products for USP3 Gene

  • Addgene plasmids for USP3

Sources for USP3 Gene

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