Human Gene USP2 (ENST00000260187.7_9) from GENCODE V47lift37
  Description: ubiquitin specific peptidase 2, transcript variant 1 (from RefSeq NM_004205.5)
Gencode Transcript: ENST00000260187.7_9
Gencode Gene: ENSG00000036672.16_13
Transcript (Including UTRs)
   Position: hg19 chr11:119,225,925-119,252,400 Size: 26,476 Total Exon Count: 13 Strand: -
Coding Region
   Position: hg19 chr11:119,227,545-119,244,190 Size: 16,646 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:119,225,925-119,252,400)mRNA (may differ from genome)Protein (605 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: UBP2_HUMAN
DESCRIPTION: RecName: Full=Ubiquitin carboxyl-terminal hydrolase 2; EC=3.4.19.12; AltName: Full=41 kDa ubiquitin-specific protease; AltName: Full=Deubiquitinating enzyme 2; AltName: Full=Ubiquitin thioesterase 2; AltName: Full=Ubiquitin-specific-processing protease 2;
FUNCTION: Hydrolase that deubiquitinates polyubiquitinated target proteins such as MDM2, MDM4 and CCND1. Isoform 1 and isoform 4 possess both ubiquitin-specific peptidase and isopeptidase activities. Deubiquitinates MDM2 without reversing MDM2-mediated p53/TP53 ubiquitination and thus indirectly promotes p53/TP53 degradation and limits p53 activity. Has no deubiquitinase activity against p53/TP53. Prevents MDM2-mediated degradation of MDM4. Plays a role in the G1/S cell-cycle progression in normal and cancer cells. Plays a role in the regulation of myogenic differentiation of embryonic muscle cells.
CATALYTIC ACTIVITY: 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).
COFACTOR: Binds 1 zinc ion.
ENZYME REGULATION: Cleavage is inhibited by ubiquitin in a dosage- dependent manner. Cleavage is blocked by ubiquitin aldehyde.
SUBUNIT: Homooligomer (By similarity). Found in trimeric complex with MDM2 and MDM4 and UPB2. Interacts with CCND1; the interaction is direct and promotes its stabilization by antagonizing ubiquitin-dependent degradation. Interacts (via N-terminus and C- terminus) with MDM2. Interacts with MDM4.
INTERACTION: P19012:KRT15; NbExp=2; IntAct=EBI-743272, EBI-739566;
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Cytoplasm, perinuclear region (By similarity). Note=Localizes in the spermatid head in late-elongating spermatids in the thin area between the outer acrosomal membrane and the plasma membrane (By similarity).
SUBCELLULAR LOCATION: Isoform 4: Nucleus (By similarity).
TISSUE SPECIFICITY: Expressed in mesangial cells of the kidney and in different types of glomerulonephritides (at protein level).
INDUCTION: Down-regulated by cisplatin (at protein level).
DOMAIN: The different N-terminus extensions of isoform 1 and isoform 4 determine their respective subcellular localization and differentiel effect on myoblast fusion and accumulation of muscle- specific proteins. The different N-terminus extensions of isoform 1 and isoform 4 are not essential for their catalytic activity (By similarity).
SIMILARITY: Belongs to the peptidase C19 family. USP2 subfamily.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: USP2
Diseases sorted by gene-association score: ovarian serous cystadenocarcinoma (13), ovary serous adenocarcinoma (6), serous cystadenocarcinoma (5), ovarian cystadenocarcinoma (5)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D016604 Aflatoxin B1
  • D001564 Benzo(a)pyrene
  • D013749 Tetrachlorodibenzodioxin
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • D015085 2,4,5-Trichlorophenoxyacetic Acid
  • C023514 2,6-dinitrotoluene
  • C548651 2-(1'H-indolo-3'-carbonyl)thiazole-4-carboxylic acid methyl ester
  • C028451 3,4,3',4'-tetrachlorobiphenyl
  • C026137 3-hydroxyacetanilide
  • D000082 Acetaminophen
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 78.08 RPKM in Testis
Total median expression: 349.92 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -116.70259-0.451 Picture PostScript Text
3' UTR -568.701620-0.351 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR018200 - Pept_C19ubi-hydrolase_C_CS
IPR001394 - Peptidase_C19

Pfam Domains:
PF00443 - Ubiquitin carboxyl-terminal hydrolase
PF13423 - Ubiquitin carboxyl-terminal hydrolase

SCOP Domains:
54001 - Cysteine proteinases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2HD5 - X-ray MuPIT 2IBI - X-ray MuPIT 3NHE - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on O75604
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004197 cysteine-type endopeptidase activity
GO:0004843 thiol-dependent ubiquitin-specific protease activity
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity
GO:0030332 cyclin binding
GO:0031625 ubiquitin protein ligase binding
GO:0036459 thiol-dependent ubiquitinyl hydrolase activity
GO:0042802 identical protein binding
GO:0046872 metal ion binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006508 proteolysis
GO:0006511 ubiquitin-dependent protein catabolic process
GO:0007049 cell cycle
GO:0007517 muscle organ development
GO:0016579 protein deubiquitination
GO:0032922 circadian regulation of gene expression
GO:0043153 entrainment of circadian clock by photoperiod
GO:0045475 locomotor rhythm
GO:0045931 positive regulation of mitotic cell cycle
GO:0048511 rhythmic process
GO:0048512 circadian behavior
GO:0050821 protein stabilization

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005938 cell cortex
GO:0016020 membrane
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC041366 - Homo sapiens ubiquitin specific peptidase 2, mRNA (cDNA clone MGC:43844 IMAGE:5273400), complete cds.
JD285148 - Sequence 266172 from Patent EP1572962.
AK057225 - Homo sapiens cDNA FLJ32663 fis, clone TESTI1000070, highly similar to Rattus norvegicus deubiquitinating enzyme Ubp69 (ubp69) mRNA.
JD334991 - Sequence 316015 from Patent EP1572962.
JD200519 - Sequence 181543 from Patent EP1572962.
AK301805 - Homo sapiens cDNA FLJ52449 complete cds, highly similar to Ubiquitin carboxyl-terminal hydrolase 2 (EC 3.1.2.15).
JD261306 - Sequence 242330 from Patent EP1572962.
JD561665 - Sequence 542689 from Patent EP1572962.
AK292255 - Homo sapiens cDNA FLJ77739 complete cds, highly similar to Homo sapiens ubiquitin specific peptidase 2 (USP2), transcript variant 2, mRNA.
JD069399 - Sequence 50423 from Patent EP1572962.
JD207142 - Sequence 188166 from Patent EP1572962.
JD068601 - Sequence 49625 from Patent EP1572962.
BC002854 - Homo sapiens ubiquitin specific peptidase 2, mRNA (cDNA clone MGC:4176 IMAGE:3635143), complete cds.
BC002955 - Homo sapiens ubiquitin specific peptidase 2, mRNA (cDNA clone MGC:1315 IMAGE:3543435), complete cds.
AF079564 - Homo sapiens ubiquitin-specific protease UBP41 (UBP41) mRNA, complete cds.
AF440755 - Homo sapiens ubiquitin specific protease 2b (USP2) mRNA, complete cds; alternatively spliced.
DQ892532 - Synthetic construct clone IMAGE:100005162; FLH187225.01X; RZPDo839F0172D ubiquitin specific peptidase 2 (USP2) gene, encodes complete protein.
DQ895743 - Synthetic construct Homo sapiens clone IMAGE:100010203; FLH187221.01L; RZPDo839F0162D ubiquitin specific peptidase 2 (USP2) gene, encodes complete protein.
JD223049 - Sequence 204073 from Patent EP1572962.
JD344027 - Sequence 325051 from Patent EP1572962.
JD125434 - Sequence 106458 from Patent EP1572962.
JD278058 - Sequence 259082 from Patent EP1572962.
MN238628 - Homo sapiens isolate 19091 KMT2A/USP2 fusion protein (KMT2A/USP2 fusion) mRNA, partial cds.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein O75604 (Reactome details) participates in the following event(s):

R-HSA-6805022 USP2 binds the heterodimer of MDM2 and MDM4
R-HSA-5689972 USP2 deubiquitinates MDM2,MDM4
R-HSA-6804757 Regulation of TP53 Degradation
R-HSA-5689880 Ub-specific processing proteases
R-HSA-6806003 Regulation of TP53 Expression and Degradation
R-HSA-5688426 Deubiquitination
R-HSA-5357905 Regulation of TNFR1 signaling
R-HSA-5633007 Regulation of TP53 Activity
R-HSA-597592 Post-translational protein modification
R-HSA-75893 TNF signaling
R-HSA-3700989 Transcriptional Regulation by TP53
R-HSA-392499 Metabolism of proteins
R-HSA-73887 Death Receptor Signalling
R-HSA-212436 Generic Transcription Pathway
R-HSA-162582 Signal Transduction
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B0YJB8, E9PPM2, ENST00000260187.1, ENST00000260187.2, ENST00000260187.3, ENST00000260187.4, ENST00000260187.5, ENST00000260187.6, NM_004205, O75604, Q8IUM2, Q8IW04, Q96MB9, Q9BQ21, UBP2_HUMAN, UBP41, uc317gja.1, uc317gja.2
UCSC ID: ENST00000260187.7_9
RefSeq Accession: NM_004205.5
Protein: O75604 (aka UBP2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.