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Aliases for USP28 Gene

Aliases for USP28 Gene

  • Ubiquitin Specific Peptidase 28 2 3
  • KIAA1515 4 6
  • Ubiquitin-Specific-Processing Protease 28 4
  • Ubiquitin Specific Protease 28 2
  • Deubiquitinating Enzyme 28 4
  • Ubiquitin Thioesterase 28 4
  • EC 3.4.19.12 4
  • EC 3.1.2.15 64

External Ids for USP28 Gene

Summaries for USP28 Gene

Entrez Gene Summary for USP28 Gene

  • The ubiquitin-dependent protein degradation pathway is essential for proteolysis of intracellular proteins and peptides. Enzymes that remove ubiquitin from ubiquitin-conjugated peptides, like USP28, affect the fate and degradation of intracellular proteins and are essential for maintenance of cell-free ubiquitin pools (Valero et al., 2001).[supplied by OMIM, Mar 2008]

GeneCards Summary for USP28 Gene

USP28 (Ubiquitin Specific Peptidase 28) is a Protein Coding gene. Among its related pathways are Protein Stability and 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 USP25.

UniProtKB/Swiss-Prot for USP28 Gene

  • Deubiquitinase involved in DNA damage response checkpoint and MYC proto-oncogene stability. Involved in DNA damage induced apoptosis by specifically deubiquitinating proteins of the DNA damage pathway such as CLSPN. Also involved in G2 DNA damage checkpoint, by deubiquitinating CLSPN, and preventing its degradation by the anaphase promoting complex/cyclosome (APC/C). In contrast, it does not deubiquitinate PLK1. Specifically deubiquitinates MYC in the nucleoplasm, leading to prevent MYC degradation by the proteasome: acts by specifically interacting with isoform 1 of FBXW7 (FBW7alpha) in the nucleoplasm and counteracting ubiquitination of MYC by the SCF(FBW7) complex. In contrast, it does not interact with isoform 4 of FBXW7 (FBW7gamma) in the nucleolus, allowing MYC degradation and explaining the selective MYC degradation in the nucleolus.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for USP28 Gene

Genomics for USP28 Gene

Genomic Location for USP28 Gene

Start:
113,797,874 bp from pter
End:
113,875,570 bp from pter
Size:
77,697 bases
Orientation:
Minus strand

Genomic View for USP28 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for USP28 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for USP28 Gene

Regulatory Elements for USP28 Gene

Proteins for USP28 Gene

  • Protein details for USP28 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96RU2-UBP28_HUMAN
    Recommended name:
    Ubiquitin carboxyl-terminal hydrolase 28
    Protein Accession:
    Q96RU2
    Secondary Accessions:
    • B0YJC0
    • B0YJC1
    • Q6NZX9
    • Q9P213

    Protein attributes for USP28 Gene

    Size:
    1077 amino acids
    Molecular mass:
    122491 Da
    Quaternary structure:
    • Interacts with isoform 1 of FBXW7; following DNA damage, dissociates from FBXW7 leading to degradation of MYC.

    Three dimensional structures from OCA and Proteopedia for USP28 Gene

    Alternative splice isoforms for USP28 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for USP28 Gene

Proteomics data for USP28 Gene at MOPED

Selected DME Specific Peptides for USP28 Gene

Post-translational modifications for USP28 Gene

Domains for USP28 Gene

Gene Families for USP28 Gene

HGNC:
  • USP :Ubiquitin-specific peptidases

UniProtKB/Swiss-Prot:

UBP28_HUMAN
Domain:
  • Contains 1 UIM (ubiquitin-interacting motif) domain.:
    • Q96RU2
  • Contains 1 USP domain.:
    • Q96RU2
Family:
  • Belongs to the peptidase C19 family. USP28 subfamily.:
    • Q96RU2
genes like me logo Genes that share domains with USP28: view

Function for USP28 Gene

Molecular function for USP28 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: Deubiquitinase involved in DNA damage response checkpoint and MYC proto-oncogene stability. Involved in DNA damage induced apoptosis by specifically deubiquitinating proteins of the DNA damage pathway such as CLSPN. Also involved in G2 DNA damage checkpoint, by deubiquitinating CLSPN, and preventing its degradation by the anaphase promoting complex/cyclosome (APC/C). In contrast, it does not deubiquitinate PLK1. Specifically deubiquitinates MYC in the nucleoplasm, leading to prevent MYC degradation by the proteasome: acts by specifically interacting with isoform 1 of FBXW7 (FBW7alpha) in the nucleoplasm and counteracting ubiquitination of MYC by the SCF(FBW7) complex. In contrast, it does not interact with isoform 4 of FBXW7 (FBW7gamma) in the nucleolus, allowing MYC degradation and explaining the selective MYC degradation in the nucleolus.
UniProtKB/Swiss-Prot Induction: Down-regulated upon hypoxia.

Enzyme Numbers (IUBMB) for USP28 Gene

Gene Ontology (GO) - Molecular Function for USP28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004197 cysteine-type endopeptidase activity IBA --
GO:0004221 ubiquitin thiolesterase activity --
GO:0004843 ubiquitin-specific protease activity IDA 16901786
GO:0005515 protein binding IPI 16901786
GO:0008234 cysteine-type peptidase activity --
genes like me logo Genes that share ontologies with USP28: view

Phenotypes for USP28 Gene

GenomeRNAi human phenotypes for USP28:
genes like me logo Genes that share phenotypes with USP28: view

No data available for Animal Models , Transcription Factor Targeting and HOMER Transcription for USP28 Gene

Localization for USP28 Gene

Subcellular locations from UniProtKB/Swiss-Prot for USP28 Gene

Nucleus, nucleoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for USP28 Gene COMPARTMENTS Subcellular localization image for USP28 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for USP28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IDA --
GO:0043234 protein complex IDA 17873522
genes like me logo Genes that share ontologies with USP28: view

Pathways for USP28 Gene

genes like me logo Genes that share pathways with USP28: view

Pathways by source for USP28 Gene

1 Qiagen pathway for USP28 Gene
1 Cell Signaling Technology pathway for USP28 Gene

Gene Ontology (GO) - Biological Process for USP28 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000077 DNA damage checkpoint IMP 18662541
GO:0006281 DNA repair IEA --
GO:0006511 ubiquitin-dependent protein catabolic process --
GO:0006974 cellular response to DNA damage stimulus IDA 17873522
GO:0008283 cell proliferation IMP 17558397
genes like me logo Genes that share ontologies with USP28: view

Compounds for USP28 Gene

(1) HMDB Compounds for USP28 Gene

Compound Synonyms Cas Number PubMed IDs
Water
  • Dihydrogen oxide
7732-18-5
genes like me logo Genes that share compounds with USP28: view

Transcripts for USP28 Gene

Unigene Clusters for USP28 Gene

Ubiquitin specific peptidase 28:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for USP28 Gene

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

ExUns: 19b ^ 20 ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28a · 28b · 28c
SP1:
SP2: -
SP3:
SP4: -
SP5:
SP6:
SP7:

Relevant External Links for USP28 Gene

GeneLoc Exon Structure for
USP28
ECgene alternative splicing isoforms for
USP28

Expression for USP28 Gene

mRNA expression in normal human tissues for USP28 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for USP28 Gene

This gene is overexpressed in Heart - Left Ventricle (5.6), Muscle - Skeletal (5.0), and Heart - Atrial Appendage (4.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for USP28 Gene

SOURCE GeneReport for Unigene cluster for USP28 Gene Hs.503891

genes like me logo Genes that share expressions with USP28: view

Orthologs for USP28 Gene

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

Orthologs for USP28 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia USP28 36
  • 98.67 (n)
  • 98.42 (a)
USP28 37
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia USP28 36
  • 90.71 (n)
  • 93.77 (a)
USP28 37
  • 93 (a)
OneToOne
dog
(Canis familiaris)
Mammalia USP28 36
  • 90.72 (n)
  • 94.13 (a)
USP28 37
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Usp28 36
  • 87.02 (n)
  • 90.72 (a)
Usp28 16
Usp28 37
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia USP28 37
  • 47 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia USP28 37
  • 68 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Usp28 36
  • 87.79 (n)
  • 91.8 (a)
chicken
(Gallus gallus)
Aves USP28 36
  • 69.09 (n)
  • 68.9 (a)
USP28 37
  • 67 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia USP28 37
  • 58 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.12044 36
usp28 36
  • 63.75 (n)
  • 64.23 (a)
zebrafish
(Danio rerio)
Actinopterygii usp28 36
  • 61.73 (n)
  • 60.16 (a)
usp28 37
  • 51 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea K02C4.3 37
  • 17 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes UBP2 39
sea squirt
(Ciona savignyi)
Ascidiacea -- 37
  • 37 (a)
OneToMany
Species with no ortholog for USP28:
  • 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)
  • 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 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 USP28 Gene

ENSEMBL:
Gene Tree for USP28 (if available)
TreeFam:
Gene Tree for USP28 (if available)

Paralogs for USP28 Gene

Paralogs for USP28 Gene

genes like me logo Genes that share paralogs with USP28: view

Variants for USP28 Gene

Sequence variations from dbSNP and Humsavar for USP28 Gene

SNP ID Clin Chr 11 pos Sequence Context AA Info Type MAF
rs756701 -- 113,818,489(-) ATGCA(A/G)CAAAC intron-variant
rs1016954 -- 113,810,254(-) ACTGA(A/T)TTGTA intron-variant
rs1016955 -- 113,805,959(-) AGAGT(A/G)AGACC intron-variant
rs1016956 -- 113,805,849(-) ACCCT(A/C)ACCCA intron-variant
rs1034582 -- 113,805,238(-) GTGCC(A/G)GAATG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for USP28 Gene

Variant ID Type Subtype PubMed ID
nsv832273 CNV Loss 17160897
nsv497 CNV Insertion 18451855

Relevant External Links for USP28 Gene

HapMap Linkage Disequilibrium report
USP28

Disorders for USP28 Gene

No disorders were found for USP28 Gene.

No data available for UniProtKB/Swiss-Prot for USP28 Gene

Publications for USP28 Gene

  1. Characterization of alternatively spliced products and tissue- specific isoforms of USP28 and USP25. (PMID: 11597335) Valero R. … Marfany G. (Genome Biol. 2001) 2 3 4 23
  2. Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10819331) Nagase T. … Ohara O. (DNA Res. 2000) 3 4
  3. Human and mouse proteases: a comparative genomic approach. (PMID: 12838346) Puente X.S. … Lopez-Otin C. (Nat. Rev. Genet. 2003) 2 3
  4. A role for the deubiquitinating enzyme USP28 in control of the DNA- damage response. (PMID: 16901786) Zhang D. … Elledge S.J. (Cell 2006) 3 4
  5. The ubiquitin-specific protease USP28 is required for MYC stability. (PMID: 17558397) Popov N. … Eilers M. (Nat. Cell Biol. 2007) 3 4

Products for USP28 Gene

  • Addgene plasmids for USP28

Sources for USP28 Gene

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