Human Gene PTP4A2 (ENST00000647444.2_7) from GENCODE V47lift37
  Description: protein tyrosine phosphatase 4A2, transcript variant 1 (from RefSeq NM_080391.4)
Gencode Transcript: ENST00000647444.2_7
Gencode Gene: ENSG00000184007.22_15
Transcript (Including UTRs)
   Position: hg19 chr1:32,372,022-32,403,969 Size: 31,948 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr1:32,374,453-32,384,666 Size: 10,214 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:32,372,022-32,403,969)mRNA (may differ from genome)Protein (167 aa)
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-  Comments and Description Text from UniProtKB
  ID: TP4A2_HUMAN
DESCRIPTION: RecName: Full=Protein tyrosine phosphatase type IVA 2; EC=3.1.3.48; AltName: Full=HU-PP-1; AltName: Full=OV-1; AltName: Full=PTP(CAAXII); AltName: Full=Protein-tyrosine phosphatase 4a2; AltName: Full=Protein-tyrosine phosphatase of regenerating liver 2; Short=PRL-2; Flags: Precursor;
FUNCTION: Protein tyrosine phosphatase which stimulates progression from G1 into S phase during mitosis. Promotes tumors. Inhibits geranylgeranyl transferase type II activity by blocking the association between RABGGTA and RABGGTB.
CATALYTIC ACTIVITY: Protein tyrosine phosphate + H(2)O = protein tyrosine + phosphate.
ENZYME REGULATION: Inhibited by sodium orthovanadate and pentamidine.
SUBUNIT: In contrast to PTP4A1 and PTP4A3, does not interact with tubulin. Interacts with RABGGTB.
SUBCELLULAR LOCATION: Cell membrane. Early endosome. Cytoplasm.
TISSUE SPECIFICITY: Ubiquitously expressed, with highest levels in skeletal muscle, heart and thymus. Overexpressed in prostate tumor tissue.
PTM: Farnesylated. Farnesylation is required for membrane targeting and for interaction with RABGGTB. Unfarnesylated forms are redirected to the nucleus and cytosol.
MISCELLANEOUS: A processed pseudogene with 96% sequence identity was found in the BRCA1 (113705) region of 17q21.
SIMILARITY: Belongs to the protein-tyrosine phosphatase family.
SIMILARITY: Contains 1 tyrosine-protein phosphatase domain.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
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+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -370.30975-0.380 Picture PostScript Text
3' UTR -650.402431-0.268 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
IPR000387 - Tyr/Dual-specificity_Pase
IPR000242 - Tyr_Pase_rcpt/non-rcpt

Pfam Domains:
PF00102 - Protein-tyrosine phosphatase

SCOP Domains:
52799 - (Phosphotyrosine protein) phosphatases II

ModBase Predicted Comparative 3D Structure on Q12974
FrontTopSide
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0004727 prenylated protein tyrosine phosphatase activity
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity

Biological Process:
GO:0006470 protein dephosphorylation
GO:0016311 dephosphorylation
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:0043687 post-translational protein modification

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005768 endosome
GO:0005769 early endosome
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AF208850 - Homo sapiens BM-008 mRNA, complete cds.
BC070181 - Homo sapiens protein tyrosine phosphatase type IVA, member 2, mRNA (cDNA clone IMAGE:4667674), with apparent retained intron.
U14603 - Human protein-tyrosine phosphatase (HU-PP-1) mRNA, partial sequence.
BC070182 - Homo sapiens protein tyrosine phosphatase type IVA, member 2, mRNA (cDNA clone MGC:88163 IMAGE:4686913), complete cds.
L39000 - Homo sapiens protein tyrosine phosphatase (PRL-1) mRNA, 3' end of cds.
AK292703 - Homo sapiens cDNA FLJ76461 complete cds, highly similar to Homo sapiens protein tyrosine phosphatase type IVA, member 2 (PTP4A2), transcript variant 1, mRNA.
AK297280 - Homo sapiens cDNA FLJ57530 complete cds, highly similar to Protein tyrosine phosphatase type IVA protein 2(EC 3.1.3.48).
U48297 - Homo sapiens protein tyrosine phosphatase PTPCAAX2 (hPTPCAAX2) mRNA, complete cds.
AK129578 - Homo sapiens cDNA FLJ26067 fis, clone PRS08047.
BC018662 - Homo sapiens protein tyrosine phosphatase type IVA, member 2, mRNA (cDNA clone IMAGE:4108553).
KJ892465 - Synthetic construct Homo sapiens clone ccsbBroadEn_01859 PTP4A2 gene, encodes complete protein.
AM392609 - Synthetic construct Homo sapiens clone IMAGE:100002713 for hypothetical protein (PTP4A2 gene).
AM393532 - Synthetic construct Homo sapiens clone IMAGE:100002962 for hypothetical protein (PTP4A2 gene).
AM393556 - Synthetic construct Homo sapiens clone IMAGE:100002714 for hypothetical protein (PTP4A2 gene).
AB528217 - Synthetic construct DNA, clone: pF1KE0474, Homo sapiens PTP4A2 gene for protein tyrosine phosphatase type IVA, member 2, without stop codon, in Flexi system.
JD551487 - Sequence 532511 from Patent EP1572962.
JD336943 - Sequence 317967 from Patent EP1572962.
JD467253 - Sequence 448277 from Patent EP1572962.
JD345863 - Sequence 326887 from Patent EP1572962.
JD273518 - Sequence 254542 from Patent EP1572962.
JD261233 - Sequence 242257 from Patent EP1572962.
JD566917 - Sequence 547941 from Patent EP1572962.
JD143907 - Sequence 124931 from Patent EP1572962.
JD363328 - Sequence 344352 from Patent EP1572962.
JD114438 - Sequence 95462 from Patent EP1572962.
JD291922 - Sequence 272946 from Patent EP1572962.
JD300127 - Sequence 281151 from Patent EP1572962.
JD236127 - Sequence 217151 from Patent EP1572962.
JD326999 - Sequence 308023 from Patent EP1572962.
JD020778 - Sequence 1802 from Patent EP1572962.
JD065443 - Sequence 46467 from Patent EP1572962.
JD035259 - Sequence 16283 from Patent EP1572962.
JD028944 - Sequence 9968 from Patent EP1572962.
JD181784 - Sequence 162808 from Patent EP1572962.
JD039425 - Sequence 20449 from Patent EP1572962.
JD091960 - Sequence 72984 from Patent EP1572962.
JD051100 - Sequence 32124 from Patent EP1572962.
JD051099 - Sequence 32123 from Patent EP1572962.
L77591 - Homo sapiens (clone SEL125) 17q YAC (176F3) RNA.
JD457709 - Sequence 438733 from Patent EP1572962.
JD197009 - Sequence 178033 from Patent EP1572962.
JD411600 - Sequence 392624 from Patent EP1572962.
JD461601 - Sequence 442625 from Patent EP1572962.
JD406801 - Sequence 387825 from Patent EP1572962.
JD057564 - Sequence 38588 from Patent EP1572962.
JD471710 - Sequence 452734 from Patent EP1572962.
JD474821 - Sequence 455845 from Patent EP1572962.
JD483254 - Sequence 464278 from Patent EP1572962.
JD459116 - Sequence 440140 from Patent EP1572962.

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

Protein Q12974 (Reactome details) participates in the following event(s):

R-HSA-8870457 FarC-PTP4A2 binds RABGGTB
R-HSA-8873719 RAB geranylgeranylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: A8K9I8, B4DM39, BM-008, D3DPP0, E9PGJ6, ENST00000647444.1, NM_080391, O00649, PRL2, PTPCAAX2, Q12974, Q15197, Q15259, Q15260, Q15261, R4GN50, TP4A2_HUMAN, uc328nms.1, uc328nms.2
UCSC ID: ENST00000647444.2_7
RefSeq Accession: NM_080391.4
Protein: Q12974 (aka TP4A2_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.