Human Gene PPM1E (ENST00000308249.4) from GENCODE V44
  Description: Homo sapiens protein phosphatase, Mg2+/Mn2+ dependent 1E (PPM1E), transcript variant 2, non-coding RNA. (from RefSeq NR_048561)
RefSeq Summary (NM_014906): This gene encodes a member of the PPM family of serine/threonine-protein phosphatases. The encoded protein is localized to the nucleus and dephosphorylates and inactivates multiple substrates including serine/threonine-protein kinase PAK 1, 5'-AMP-activated protein kinase (AMPK) and the multifunctional calcium/calmodulin-dependent protein kinases. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, May 2012].
Gencode Transcript: ENST00000308249.4
Gencode Gene: ENSG00000175175.6
Transcript (Including UTRs)
   Position: hg38 chr17:58,755,854-58,985,179 Size: 229,326 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg38 chr17:58,755,998-58,981,031 Size: 225,034 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr17:58,755,854-58,985,179)mRNA (may differ from genome)Protein (755 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=Protein phosphatase 1E; EC=; AltName: Full=Ca(2+)/calmodulin-dependent protein kinase phosphatase N; Short=CaMKP-N; AltName: Full=CaMKP-nucleus; Short=CaMKN; AltName: Full=Partner of PIX 1; AltName: Full=Partner of PIX-alpha; Short=Partner of PIXA;
FUNCTION: Protein phosphatase that inactivates multifunctional CaM kinases such as CAMK4 and CAMK2 (By similarity). Dephosphorylates and inactivates PAK. May play a role in the inhibition of actin fiber stress breakdown and in morphological changes driven by TNK2/CDC42.
CATALYTIC ACTIVITY: A phosphoprotein + H(2)O = a protein + phosphate.
COFACTOR: Binds 2 magnesium or manganese ions per subunit (By similarity).
SUBUNIT: Heterotrimer. Interacts with PAX1 and ARHGEF6 (or ARHGEF7).
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Note=A truncated form, major form, with the C-terminal part missing, is mostly found in the cytoplasm and a little in the nucleus. The full length, minor form, is found in the nucleus.
POLYMORPHISM: The poly-Pro-Glu stretch is polymorphic.
SIMILARITY: Belongs to the PP2C family.
SIMILARITY: Contains 1 PP2C-like domain.
SEQUENCE CAUTION: Sequence=BAA83024.2; Type=Erroneous initiation; Note=Translation N-terminally shortened;

-  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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 9.18 RPKM in Testis
Total median expression: 25.43 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 -48.00144-0.333 Picture PostScript Text
3' UTR -1024.904148-0.247 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
IPR001932 - PP2C-like
IPR000222 - PP2C_Mn2_Asp60_BS
IPR015655 - Protein_Pase_2C

Pfam Domains:
PF00481 - Protein phosphatase 2C

ModBase Predicted Comparative 3D Structure on Q8WY54
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
Genome BrowserGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene Details     
Gene Sorter     
Protein SequenceProtein SequenceProtein SequenceProtein Sequence  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003824 catalytic activity
GO:0004721 phosphoprotein phosphatase activity
GO:0004722 protein serine/threonine phosphatase activity
GO:0005515 protein binding
GO:0016787 hydrolase activity
GO:0043169 cation binding
GO:0046872 metal ion binding

Biological Process:
GO:0006469 negative regulation of protein kinase activity
GO:0006470 protein dephosphorylation
GO:0035690 cellular response to drug
GO:0035970 peptidyl-threonine dephosphorylation
GO:0051496 positive regulation of stress fiber assembly

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005739 mitochondrion
GO:0032991 macromolecular complex

-  Descriptions from all associated GenBank mRNAs
  KJ902239 - Synthetic construct Homo sapiens clone ccsbBroadEn_11633 PPM1E gene, encodes complete protein.
AK289966 - Homo sapiens cDNA FLJ76651 complete cds, highly similar to Homo sapiens partner of PIX 1 (POPX1) mRNA.
AB028995 - Homo sapiens KIAA1072 mRNA for KIAA1072 protein.
BC151228 - Homo sapiens protein phosphatase 1E (PP2C domain containing), mRNA (cDNA clone MGC:166877 IMAGE:9007247), complete cds.
AF260269 - Homo sapiens PP2CH mRNA, complete cds.
BC136290 - Homo sapiens protein phosphatase 1E (PP2C domain containing), mRNA (cDNA clone MGC:167900 IMAGE:9020277), complete cds.
BC143845 - Homo sapiens cDNA clone IMAGE:9052360.
AB384101 - Synthetic construct DNA, clone: pF1KSDA1072, Homo sapiens PPM1E gene for protein phosphatase 1E, complete cds, without stop codon, in Flexi system.
AF520614 - Homo sapiens partner of PIX 1 (POPX1) mRNA, complete cds.
CR749253 - Homo sapiens mRNA; cDNA DKFZp781F1422 (from clone DKFZp781F1422).
JD090242 - Sequence 71266 from Patent EP1572962.
JD126558 - Sequence 107582 from Patent EP1572962.
JD130899 - Sequence 111923 from Patent EP1572962.
LF212425 - JP 2014500723-A/19928: Polycomb-Associated Non-Coding RNAs.
MA448002 - JP 2018138019-A/19928: Polycomb-Associated Non-Coding RNAs.
JD476431 - Sequence 457455 from Patent EP1572962.
JD038364 - Sequence 19388 from Patent EP1572962.
JD250374 - Sequence 231398 from Patent EP1572962.
JD307865 - Sequence 288889 from Patent EP1572962.
JD114351 - Sequence 95375 from Patent EP1572962.
JD563867 - Sequence 544891 from Patent EP1572962.
JD191093 - Sequence 172117 from Patent EP1572962.
JD304175 - Sequence 285199 from Patent EP1572962.
JD533331 - Sequence 514355 from Patent EP1572962.
JD521100 - Sequence 502124 from Patent EP1572962.
JD280861 - Sequence 261885 from Patent EP1572962.
JD346076 - Sequence 327100 from Patent EP1572962.
JD410331 - Sequence 391355 from Patent EP1572962.
JD502888 - Sequence 483912 from Patent EP1572962.
JD239274 - Sequence 220298 from Patent EP1572962.
JD434587 - Sequence 415611 from Patent EP1572962.
JD243053 - Sequence 224077 from Patent EP1572962.
JD370340 - Sequence 351364 from Patent EP1572962.
JD068052 - Sequence 49076 from Patent EP1572962.
JD541373 - Sequence 522397 from Patent EP1572962.
LF384791 - JP 2014500723-A/192294: Polycomb-Associated Non-Coding RNAs.
MA620368 - JP 2018138019-A/192294: Polycomb-Associated Non-Coding RNAs.
JD345436 - Sequence 326460 from Patent EP1572962.
JD279648 - Sequence 260672 from Patent EP1572962.
JD394556 - Sequence 375580 from Patent EP1572962.
JD260411 - Sequence 241435 from Patent EP1572962.
JD121275 - Sequence 102299 from Patent EP1572962.
JD296735 - Sequence 277759 from Patent EP1572962.
JD313010 - Sequence 294034 from Patent EP1572962.
JD273979 - Sequence 255003 from Patent EP1572962.
JD498898 - Sequence 479922 from Patent EP1572962.
JD093991 - Sequence 75015 from Patent EP1572962.
JD433700 - Sequence 414724 from Patent EP1572962.
JD331429 - Sequence 312453 from Patent EP1572962.
JD499184 - Sequence 480208 from Patent EP1572962.
JD377374 - Sequence 358398 from Patent EP1572962.
JD324757 - Sequence 305781 from Patent EP1572962.
JD267896 - Sequence 248920 from Patent EP1572962.
JD269052 - Sequence 250076 from Patent EP1572962.
JD283487 - Sequence 264511 from Patent EP1572962.
JD342693 - Sequence 323717 from Patent EP1572962.
JD348773 - Sequence 329797 from Patent EP1572962.
JD295003 - Sequence 276027 from Patent EP1572962.
JD290266 - Sequence 271290 from Patent EP1572962.
JD109679 - Sequence 90703 from Patent EP1572962.
JD243093 - Sequence 224117 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: CAMKN, ENST00000308249.1, ENST00000308249.2, ENST00000308249.3, KIAA1072, NR_048561, POPX1, PPM1E_HUMAN, Q68DW1, Q7LAF3, Q8WY54, Q9UPT0, uc002iwx.1, uc002iwx.2, uc002iwx.3, uc002iwx.4, uc002iwx.5, uc002iwx.6
UCSC ID: ENST00000308249.4
RefSeq Accession: NM_014906
Protein: Q8WY54 (aka PPM1E_HUMAN)
CCDS: CCDS11613.1

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