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Aliases for USP16 Gene

Aliases for USP16 Gene

  • Ubiquitin Specific Peptidase 16 2 3 5
  • Ubiquitin-Specific-Processing Protease 16 3 4
  • Ubiquitin-Processing Protease UBP-M 3 4
  • Ubiquitin Specific Protease 16 2 3
  • Deubiquitinating Enzyme 16 3 4
  • Ubiquitin Thioesterase 16 3 4
  • Ubiquitin-Specific Processing Protease 16 3
  • Ubiquitin Thiolesterase 16 3
  • EC 3.4.19.12 4
  • EC 3.1.2.15 63
  • UBP-M 3
  • UBPM 3

External Ids for USP16 Gene

Previous GeneCards Identifiers for USP16 Gene

  • GC21P026975
  • GC21P029318
  • GC21P030396
  • GC21P015803

Summaries for USP16 Gene

Entrez Gene Summary for USP16 Gene

  • This gene encodes a deubiquitinating enzyme that is phosphorylated at the onset of mitosis and then dephosphorylated at the metaphase/anaphase transition. It can deubiquitinate H2A, one of two major ubiquitinated proteins of chromatin, in vitro and a mutant form of the protein was shown to block cell division. Alternate transcriptional splice variants, encoding different isoforms, have been characterized. [provided by RefSeq, Jul 2008]

GeneCards Summary for USP16 Gene

USP16 (Ubiquitin Specific Peptidase 16) is a Protein Coding gene. Among its related pathways are Ubiquitin-Proteasome Dependent Proteolysis and Integrated Breast Cancer Pathway. GO annotations related to this gene include transcription coactivator activity and cysteine-type endopeptidase activity. An important paralog of this gene is USP49.

UniProtKB/Swiss-Prot for USP16 Gene

  • Specifically deubiquitinates Lys-120 of histone H2A (H2AK119Ub), a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Deubiquitination of histone H2A is a prerequisite for subsequent phosphorylation at Ser-11 of histone H3 (H3S10ph), and is required for chromosome segregation when cells enter into mitosis. In resting B- and T-lymphocytes, phosphorylation by AURKB leads to enhance its activity, thereby maintaining transcription in resting lymphocytes. Regulates Hox gene expression via histone H2A deubiquitination. Prefers nucleosomal substrates. Does not deubiquitinate histone H2B.

Gene Wiki entry for USP16 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP16 Gene

Genomics for USP16 Gene

Regulatory Elements for USP16 Gene

Enhancers for USP16 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around USP16 on UCSC Golden Path with GeneCards custom track

Promoters for USP16 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around USP16 on UCSC Golden Path with GeneCards custom track

Genomic Location for USP16 Gene

Chromosome:
21
Start:
29,024,617 bp from pter
End:
29,054,488 bp from pter
Size:
29,872 bases
Orientation:
Plus strand

Genomic View for USP16 Gene

Genes around USP16 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
USP16 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for USP16 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP16 Gene

Proteins for USP16 Gene

  • Protein details for USP16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y5T5-UBP16_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 16
    Protein Accession:
    Q9Y5T5
    Secondary Accessions:
    • A8MU43
    • B3KN13
    • B4DFV8
    • B4DY37
    • D3DSD9
    • Q53GP7
    • Q53HA0
    • Q5VKN8
    • Q8NEL3
    • Q9H3E6

    Protein attributes for USP16 Gene

    Size:
    823 amino acids
    Molecular mass:
    93570 Da
    Quaternary structure:
    • Homotetramer.
    Miscellaneous:
    • USP16 may contribute to somatic stem cell defects observed in Down syndrome. USP16 is triplicated in Down syndrome and its overexpression may contribute to proliferation defects in stem cells. Reduction of USP16 levels results in increased proliferation capacity of Down syndrome fibroblasts (PubMed:24025767).
    SequenceCaution:
    • Sequence=AAG39290.1; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAG51175.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for USP16 Gene

    Alternative splice isoforms for USP16 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP16 Gene

Proteomics data for USP16 Gene at MOPED

Post-translational modifications for USP16 Gene

  • Phosphorylated at the onset of mitosis and dephosphorylated during the metaphase/anaphase transition. Phosphorylation by AURKB enhances the deubiquitinase activity.
  • Ubiquitination at Lys 293
  • Modification sites at PhosphoSitePlus

Other Protein References for USP16 Gene

Domains & Families for USP16 Gene

Gene Families for USP16 Gene

Graphical View of Domain Structure for InterPro Entry

Q9Y5T5

UniProtKB/Swiss-Prot:

UBP16_HUMAN :
  • The UBP-type zinc finger binds 3 zinc ions that form a pair of cross-braced ring fingers encapsulated within a third zinc finger in the primary structure. It recognizes the C-terminal tail of free ubiquitin.
  • Belongs to the peptidase C19 family. USP16 subfamily.
  • Contains 1 UBP-type zinc finger.
Domain:
  • The UBP-type zinc finger binds 3 zinc ions that form a pair of cross-braced ring fingers encapsulated within a third zinc finger in the primary structure. It recognizes the C-terminal tail of free ubiquitin.
  • Contains 1 USP domain.
Family:
  • Belongs to the peptidase C19 family. USP16 subfamily.
Similarity:
  • Contains 1 UBP-type zinc finger.
genes like me logo Genes that share domains with USP16: view

Function for USP16 Gene

Molecular function for USP16 Gene

GENATLAS Biochemistry:
ubiquitin specific protease 16,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:
Specifically deubiquitinates Lys-120 of histone H2A (H2AK119Ub), a specific tag for epigenetic transcriptional repression, thereby acting as a coactivator. Deubiquitination of histone H2A is a prerequisite for subsequent phosphorylation at Ser-11 of histone H3 (H3S10ph), and is required for chromosome segregation when cells enter into mitosis. In resting B- and T-lymphocytes, phosphorylation by AURKB leads to enhance its activity, thereby maintaining transcription in resting lymphocytes. Regulates Hox gene expression via histone H2A deubiquitination. Prefers nucleosomal substrates. Does not deubiquitinate histone H2B.

Enzyme Numbers (IUBMB) for USP16 Gene

genes like me logo Genes that share phenotypes with USP16: view

Animal Models for USP16 Gene

MGI Knock Outs for USP16:

Animal Model Products

  • Taconic Biosciences Mouse Models for USP16

No data available for Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for USP16 Gene

Localization for USP16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP16 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for USP16 Gene COMPARTMENTS Subcellular localization image for USP16 gene
Compartment Confidence
nucleus 5
cytosol 3

No data available for Gene Ontology (GO) - Cellular Components for USP16 Gene

Pathways & Interactions for USP16 Gene

genes like me logo Genes that share pathways with USP16: view

Pathways by source for USP16 Gene

1 BioSystems pathway for USP16 Gene
1 Qiagen pathway for USP16 Gene

SIGNOR curated interactions for USP16 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for USP16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006511 ubiquitin-dependent protein catabolic process IEA --
GO:0006974 cellular response to DNA damage stimulus IDA 20550933
GO:0007067 mitotic nuclear division IDA 17914355
GO:0016578 histone deubiquitination IDA 17914355
GO:0016579 protein deubiquitination IEA --
genes like me logo Genes that share ontologies with USP16: view

Drugs & Compounds for USP16 Gene

(1) Additional Compounds for USP16 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Water
  • Dihydrogen oxide
  • Steam
7732-18-5
genes like me logo Genes that share compounds with USP16: view

Transcripts for USP16 Gene

Unigene Clusters for USP16 Gene

Ubiquitin specific peptidase 16:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for USP16 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7 ^ 8a · 8b ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16a · 16b ^ 17 ^ 18 ^ 19 ^ 20a ·
SP1: - - - -
SP2: - - -
SP3: -
SP4: - -
SP5:
SP6:
SP7:

ExUns: 20b ^ 21
SP1:
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:

Relevant External Links for USP16 Gene

GeneLoc Exon Structure for
USP16
ECgene alternative splicing isoforms for
USP16

Expression for USP16 Gene

mRNA expression in normal human tissues for USP16 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for USP16 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (21.4), Placenta (11.3), Pancreas (8.8), Blymphocyte (6.4), and Testis (6.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for USP16 Gene



SOURCE GeneReport for Unigene cluster for USP16 Gene Hs.99819

mRNA Expression by UniProt/SwissProt for USP16 Gene

Q9Y5T5-UBP16_HUMAN
Tissue specificity: Present in all the tissues examined including fetal brain, lung, liver, kidney, and adult heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas.
genes like me logo Genes that share expression patterns with USP16: view

Protein tissue co-expression partners for USP16 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for USP16 Gene

Orthologs for USP16 Gene

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

Orthologs for USP16 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia USP16 35
  • 90.59 (n)
  • 91.12 (a)
USP16 36
  • 91 (a)
OneToOne
dog
(Canis familiaris)
Mammalia USP16 35
  • 92.05 (n)
  • 92.21 (a)
USP16 36
  • 92 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Usp16 35
  • 84.94 (n)
  • 82.78 (a)
Usp16 16
Usp16 36
  • 83 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia USP16 35
  • 99.43 (n)
  • 99.15 (a)
USP16 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Usp16 35
  • 85.61 (n)
  • 83.29 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 68 (a)
OneToMany
-- 36
  • 71 (a)
OneToMany
chicken
(Gallus gallus)
Aves USP16 35
  • 70.2 (n)
  • 66.75 (a)
USP16 36
  • 65 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia USP16 36
  • 61 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia usp16 35
  • 62.22 (n)
  • 56.67 (a)
African clawed frog
(Xenopus laevis)
Amphibia MGC68701 35
zebrafish
(Danio rerio)
Actinopterygii usp16 35
  • 56.85 (n)
  • 52.88 (a)
usp16 36
  • 49 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta CG4165 36
  • 23 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea cyk-3 36
  • 14 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP16 38
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 35 (a)
OneToOne
Species with no ortholog for USP16:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • 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)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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 USP16 Gene

ENSEMBL:
Gene Tree for USP16 (if available)
TreeFam:
Gene Tree for USP16 (if available)

Paralogs for USP16 Gene

Paralogs for USP16 Gene

(3) SIMAP similar genes for USP16 Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with USP16: view

Variants for USP16 Gene

Sequence variations from dbSNP and Humsavar for USP16 Gene

SNP ID Clin Chr 21 pos Sequence Context AA Info Type
rs2274802 - 29,036,349(+) AAACA(A/T)GCCAG reference, missense
rs2254872 -- 29,042,403(+) CAGGG(C/T)AGGGA intron-variant
rs2276517 -- 29,044,499(-) tttgc(A/G)ctcca intron-variant
rs2409330 -- 29,035,981(+) CTGTA(A/T)TTTAA intron-variant
rs2692624 -- 29,053,320(-) CCCAC(A/G)AGAGA intron-variant

Variation tolerance for USP16 Gene

Residual Variation Intolerance Score: 37.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.75; 83.21% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for USP16 Gene

HapMap Linkage Disequilibrium report
USP16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for USP16 Gene

Disorders for USP16 Gene

UniProtKB/Swiss-Prot

UBP16_HUMAN
  • Note=A chromosomal aberration involving USP16 is a cause of Chronic myelomonocytic leukemia. Inversion inv(21) (q21;q22) with RUNX1/AML1.

Relevant External Links for USP16

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
USP16

No disorders were found for USP16 Gene.

No data available for MalaCards and Genatlas for USP16 Gene

Publications for USP16 Gene

  1. A mutant deubiquitinating enzyme (Ubp-M) associates with mitotic chromosomes and blocks cell division. (PMID: 10077596) Cai S.-Y. … Marchesi V.T. (Proc. Natl. Acad. Sci. U.S.A. 1999) 3 4 23 67
  2. Solution structure of the Ubp-M BUZ domain, a highly specific protein module that recognizes the C-terminal tail of free ubiquitin. (PMID: 17512543) Pai M.-T. … Zhou P. (J. Mol. Biol. 2007) 3 23
  3. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente X.S. … Lopez-Otin C. (Nat. Rev. Genet. 2003) 2 3
  4. Liganded ERI+ Stimulates the E3 Ubiquitin Ligase Activity of UBE3C to Facilitate Cell Proliferation. (PMID: 26389696) Okada M. … Ohta T. (Mol. Endocrinol. 2015) 3
  5. Usp16 regulates kinetochore localization of Plk1 to promote proper chromosome alignment in mitosis. (PMID: 26323689) Zhuo X. … Zhang C. (J. Cell Biol. 2015) 3

Products for USP16 Gene

Sources for USP16 Gene

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