Human Gene PPP5C (ENST00000012443.9_4) from GENCODE V47lift37
  Description: protein phosphatase 5 catalytic subunit, transcript variant 1 (from RefSeq NM_006247.4)
Gencode Transcript: ENST00000012443.9_4
Gencode Gene: ENSG00000011485.15_7
Transcript (Including UTRs)
   Position: hg19 chr19:46,850,344-46,894,232 Size: 43,889 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr19:46,850,354-46,893,603 Size: 43,250 Coding Exon Count: 13 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr19:46,850,344-46,894,232)mRNA (may differ from genome)Protein (499 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PPP5_HUMAN
DESCRIPTION: RecName: Full=Serine/threonine-protein phosphatase 5; Short=PP5; EC=3.1.3.16; AltName: Full=Protein phosphatase T; Short=PP-T; Short=PPT;
FUNCTION: May play a role in the regulation of RNA biogenesis and/or mitosis. In vitro, dephosphorylates serine residues of skeletal muscle phosphorylase and histone H1.
CATALYTIC ACTIVITY: A phosphoprotein + H(2)O = a protein + phosphate.
COFACTOR: Binds 1 iron ion per subunit (By similarity).
COFACTOR: Binds 1 manganese ion per subunit (By similarity).
SUBUNIT: Interacts with CDC16 and CDC27.
INTERACTION: Self; NbExp=2; IntAct=EBI-716663, EBI-716663; Q16543:CDC37; NbExp=2; IntAct=EBI-716663, EBI-295634; P03372:ESR1; NbExp=4; IntAct=EBI-716663, EBI-78473; Q92731:ESR2; NbExp=4; IntAct=EBI-716663, EBI-78505; P07900:HSP90AA1; NbExp=8; IntAct=EBI-716663, EBI-296047;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=Predominantly nuclear. But also present in the cytoplasm.
TISSUE SPECIFICITY: Ubiquitous.
SIMILARITY: Belongs to the PPP phosphatase family. PP-5 (PP-T) subfamily.
SIMILARITY: Contains 3 TPR repeats.

-  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           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: 34.13 RPKM in Pituitary
Total median expression: 1113.24 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
3' UTR -306.10629-0.487 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
IPR004843 - Metallo_PEstase_dom
IPR013235 - PPP_dom
IPR006186 - Ser/Thr-sp_prot-phosphatase
IPR011236 - Ser/Thr_PPase_5
IPR001440 - TPR-1
IPR013026 - TPR-contain_dom
IPR011990 - TPR-like_helical
IPR019734 - TPR_repeat

Pfam Domains:
PF00149 - Calcineurin-like phosphoesterase
PF00515 - Tetratricopeptide repeat
PF07719 - Tetratricopeptide repeat
PF08321 - PPP5 TPR repeat region
PF13181 - Tetratricopeptide repeat
PF13414 - TPR repeat
PF13432 - Tetratricopeptide repeat

SCOP Domains:
81901 - HCP-like
48439 - Protein prenylyltransferase
48452 - TPR-like
116846 - MIT domain
56300 - Metallo-dependent phosphatases

Protein Data Bank (PDB) 3-D Structure
MuPIT help
1A17 - X-ray MuPIT 1S95 - X-ray MuPIT 1WAO - X-ray MuPIT 2BUG - NMR MuPIT 3H60 - X-ray MuPIT 3H61 - X-ray MuPIT 3H62 - X-ray MuPIT 3H63 - X-ray MuPIT 3H64 - X-ray MuPIT 3H66 - X-ray MuPIT 3H67 - X-ray MuPIT 3H68 - X-ray MuPIT 3H69 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P53041
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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 orthologGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
     Protein Sequence
     Alignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0001965 G-protein alpha-subunit binding
GO:0003723 RNA binding
GO:0004721 phosphoprotein phosphatase activity
GO:0004722 protein serine/threonine phosphatase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008017 microtubule binding
GO:0008289 lipid binding
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0031072 heat shock protein binding
GO:0042802 identical protein binding
GO:0043531 ADP binding
GO:0046872 metal ion binding
GO:0051879 Hsp90 protein binding

Biological Process:
GO:0000165 MAPK cascade
GO:0000278 mitotic cell cycle
GO:0001933 negative regulation of protein phosphorylation
GO:0006281 DNA repair
GO:0006351 transcription, DNA-templated
GO:0006470 protein dephosphorylation
GO:0006974 cellular response to DNA damage stimulus
GO:0010288 response to lead ion
GO:0016576 histone dephosphorylation
GO:0035970 peptidyl-threonine dephosphorylation
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043278 response to morphine
GO:0051259 protein oligomerization
GO:0051291 protein heterooligomerization
GO:0060548 negative regulation of cell death
GO:0070262 peptidyl-serine dephosphorylation
GO:0070301 cellular response to hydrogen peroxide
GO:0071276 cellular response to cadmium ion
GO:1901215 negative regulation of neuron death
GO:1904550 response to arachidonic acid
GO:2000324 positive regulation of glucocorticoid receptor signaling pathway

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0032991 macromolecular complex
GO:0043005 neuron projection
GO:0043025 neuronal cell body
GO:0043204 perikaryon
GO:0043231 intracellular membrane-bounded organelle
GO:0071944 cell periphery
GO:1990635 proximal dendrite


-  Descriptions from all associated GenBank mRNAs
  BC001970 - Homo sapiens protein phosphatase 5, catalytic subunit, mRNA (cDNA clone MGC:5260 IMAGE:3459309), complete cds.
X92121 - H.sapiens mRNA for serine/threonine phosphatase.
AK312683 - Homo sapiens cDNA, FLJ93076, highly similar to Homo sapiens protein phosphatase 5, catalytic subunit (PPP5C), mRNA.
AK223222 - Homo sapiens mRNA for protein phosphatase 5, catalytic subunit variant, clone: STM00488.
AB527518 - Synthetic construct DNA, clone: pF1KB5893, Homo sapiens PPP5C gene for protein phosphatase 5, catalytic subunit, without stop codon, in Flexi system.
BT007275 - Homo sapiens protein phosphatase 5, catalytic subunit mRNA, complete cds.
AK293402 - Homo sapiens cDNA FLJ55048 complete cds, highly similar to Serine/threonine-protein phosphatase 5 (EC 3.1.3.16).
AK297095 - Homo sapiens cDNA FLJ55717 complete cds, highly similar to Serine/threonine-protein phosphatase 5 (EC 3.1.3.16).
BC000750 - Homo sapiens protein phosphatase 5, catalytic subunit, mRNA (cDNA clone IMAGE:2961155), partial cds.
BC001831 - Homo sapiens protein phosphatase 5, catalytic subunit, mRNA (cDNA clone IMAGE:2961155), partial cds.
X89416 - H.sapiens mRNA for protein phosphatase 5.
U25174 - Human serine-threonine phosphatase (PP5) mRNA, partial cds.
AB209615 - Homo sapiens mRNA for protein phosphatase 5, catalytic subunit variant protein.
AK094241 - Homo sapiens cDNA FLJ36922 fis, clone BRACE2005083, highly similar to SERINE/THREONINE PROTEIN PHOSPHATASE 5 (EC 3.1.3.16).
AK293475 - Homo sapiens cDNA FLJ55954 complete cds, highly similar to Serine/threonine-protein phosphatase 5 (EC 3.1.3.16).
JD107206 - Sequence 88230 from Patent EP1572962.
JD485995 - Sequence 467019 from Patent EP1572962.
JD077232 - Sequence 58256 from Patent EP1572962.
JD369097 - Sequence 350121 from Patent EP1572962.
JD488330 - Sequence 469354 from Patent EP1572962.
JD416776 - Sequence 397800 from Patent EP1572962.
JD469983 - Sequence 451007 from Patent EP1572962.
JD103742 - Sequence 84766 from Patent EP1572962.
JD496618 - Sequence 477642 from Patent EP1572962.
JD283077 - Sequence 264101 from Patent EP1572962.
JD397672 - Sequence 378696 from Patent EP1572962.

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

Protein P53041 (Reactome details) participates in the following event(s):

R-HSA-5675433 PP5 dephosphorylates RAF1 S338
R-HSA-8939203 HSP90-dependent ATP hydrolysis promotes release of ESR:ESTG from chaperone complex
R-HSA-5683405 PPP5C dephosphorylates TP53BP1
R-HSA-8939204 ESTG binds the ESR:chaperone complex
R-HSA-5675221 Negative regulation of MAPK pathway
R-HSA-8939211 ESR-mediated signaling
R-HSA-5693565 Recruitment and ATM-mediated phosphorylation of repair and signaling proteins at DNA double strand breaks
R-HSA-5673001 RAF/MAP kinase cascade
R-HSA-9006931 Signaling by Nuclear Receptors
R-HSA-5693606 DNA Double Strand Break Response
R-HSA-5684996 MAPK1/MAPK3 signaling
R-HSA-162582 Signal Transduction
R-HSA-5693532 DNA Double-Strand Break Repair
R-HSA-5683057 MAPK family signaling cascades
R-HSA-73894 DNA Repair

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000012443.1, ENST00000012443.2, ENST00000012443.3, ENST00000012443.4, ENST00000012443.5, ENST00000012443.6, ENST00000012443.7, ENST00000012443.8, NM_006247, P53041, PPP5, PPP5_HUMAN, Q16722, Q53XV2, uc317bxq.1, uc317bxq.2
UCSC ID: ENST00000012443.9_4
RefSeq Accession: NM_006247.4
Protein: P53041 (aka PPP5_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.