Human Gene PHLPP1 (uc021ule.1)
  Description: Homo sapiens PH domain and leucine rich repeat protein phosphatase 1 (PHLPP1), mRNA.
RefSeq Summary (NM_194449): This gene encodes a member of the serine/threonine phosphatase family. The encoded protein promotes apoptosis by dephosphorylating and inactivating the serine/threonine kinase Akt, and functions as a tumor suppressor in multiple types of cancer. Increased expression of this gene may also play a role in obesity and type 2 diabetes by interfering with Akt-mediated insulin signaling. [provided by RefSeq, Dec 2011]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data because no single transcript was available for the full length of the gene. The extent of this transcript is supported by transcript alignments and orthologous data. CCDS Note: The coding region has been updated to extend the N-terminus to one that is more supported by available conservation data and publications. There are no publicly available human transcripts that include the extended region. However, the update is supported by homologous transcript data and is consistent with the full-length 190 kDa human isoform described in the literature. This 190 kDa product, known as PHLPP1beta, has been detected in several studies, including PMIDs 17386267, 19079341, 20089132, 20819118 and 20861921.
Transcript (Including UTRs)
   Position: hg19 chr18:60,382,672-60,647,676 Size: 265,005 Total Exon Count: 17 Strand: +
Coding Region
   Position: hg19 chr18:60,382,917-60,646,664 Size: 263,748 Coding Exon Count: 17 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr18:60,382,672-60,647,676)mRNA (may differ from genome)Protein (1717 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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neXtProtOMIMPubMedReactomeTreefamUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PHLP1_HUMAN
DESCRIPTION: RecName: Full=PH domain leucine-rich repeat-containing protein phosphatase 1; EC=3.1.3.16; AltName: Full=Pleckstrin homology domain-containing family E member 1; Short=PH domain-containing family E member 1; AltName: Full=Suprachiasmatic nucleus circadian oscillatory protein; Short=hSCOP;
FUNCTION: Protein phosphatase that mediates dephosphorylation of 'Ser-473' of AKT1, 'Ser-660' of PRKCB isoform beta-II and 'Ser- 657' of PRKCA. AKT1 regulates the balance between cell survival and apoptosis through a cascade that primarily alters the function of transcription factors that regulate pro- and antiapoptotic genes. Dephosphorylation of 'Ser-473' of AKT1 triggers apoptosis and suppression of tumor growth. Controls the phosphorylation of AKT2 and AKT3 more efficiently than that of AKT1. Dephosphorylation of PRKCA and PRKCB leads to their destabilization and degradation. Inhibits cancer cell proliferation and may act as a tumor suppressor. May act as a negative regulator of K-Ras signaling in membrane rafts.
CATALYTIC ACTIVITY: A phosphoprotein + H(2)O = a protein + phosphate.
COFACTOR: Binds 2 manganese ions per subunit (By similarity).
ENZYME REGULATION: Insensitive to okadaic acid.
SUBUNIT: Interacts with the nucleotide free form of K-Ras (KRAS) via its LRR repeats (By similarity). Interacts with AKT2, AKT3 and PRKCB isoform beta-II.
SUBCELLULAR LOCATION: Cytoplasm. Membrane; Peripheral membrane protein. Nucleus. Note=In colorectal cancer tissue, expression is concentrated at the lateral membrane of epithelial cells.
TISSUE SPECIFICITY: In colorectal cancer tissue, expression is highest in the surface epithelium of normal colonic mucosa adjacent to the cancer tissue but is largely excluded from the crypt bases. Expression is lost or significantly decreased in 78% of tested tumors (at protein level). Ubiquitously expressed in non-cancerous tissues.
DOMAIN: The PH domain is required for interaction with PRKCB and its dephosphorylation.
SIMILARITY: Contains 21 LRR (leucine-rich) repeats.
SIMILARITY: Contains 1 PH domain.
SIMILARITY: Contains 1 PP2C-like domain.
SEQUENCE CAUTION: Sequence=AAH14927.3; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=AAH82244.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence; Sequence=AAI26278.1; Type=Erroneous initiation; Note=Translation N-terminally extended; Sequence=BAA91980.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): PHLPP1
CDC HuGE Published Literature: PHLPP1
Positive Disease Associations: Blood Pressure Determination , Stroke
Related Studies:
  1. Blood Pressure Determination
    , , . [PubMed 0]
  2. Blood Pressure Determination
    , , . [PubMed 0]
  3. Stroke
    , , . [PubMed 0]
           more ... click here to view the complete list

-  MalaCards Disease Associations
  MalaCards Gene Search: PHLPP1
Diseases sorted by gene-association score: colorectal cancer (3)

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

+  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: 17.20 RPKM in Brain - Caudate (basal ganglia)
Total median expression: 317.46 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 -125.00245-0.510 Picture PostScript Text
3' UTR -261.811012-0.259 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
IPR001611 - Leu-rich_rpt
IPR011993 - PH_like_dom
IPR001849 - Pleckstrin_homology
IPR001932 - PP2C-like

Pfam Domains:
PF00169 - PH domain
PF00481 - Protein phosphatase 2C
PF13516 - Leucine Rich repeat
PF13855 - Leucine rich repeat

SCOP Domains:
50729 - PH domain-like
52047 - RNI-like
52058 - L domain-like
52075 - Outer arm dynein light chain 1
81606 - Protein serine/threonine phosphatase 2C, catalytic domain

ModBase Predicted Comparative 3D Structure on O60346
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-  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 orthologGenome BrowserGenome BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  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:0046872 metal ion binding

Biological Process:
GO:0002667 regulation of T cell anergy
GO:0006470 protein dephosphorylation
GO:0006915 apoptotic process
GO:0009649 entrainment of circadian clock
GO:0042981 regulation of apoptotic process
GO:0043408 regulation of MAPK cascade
GO:0046328 regulation of JNK cascade
GO:0051898 negative regulation of protein kinase B signaling
GO:0090036 regulation of protein kinase C signaling
GO:1900744 regulation of p38MAPK cascade

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0031965 nuclear membrane


-  Descriptions from all associated GenBank mRNAs
  AB011178 - Homo sapiens mRNA for KIAA0606 protein, partial cds.
BC126277 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone MGC:161555 IMAGE:8991993), complete cds.
BC014927 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone MGC:17934 IMAGE:3916044), complete cds.
AK001924 - Homo sapiens cDNA FLJ11062 fis, clone PLACE1004804, weakly similar to ADENYLATE CYCLASE (EC 4.6.1.1).
AB385360 - Synthetic construct DNA, clone: pF1KA0606, Homo sapiens PHLPP gene for PH domain leucine-rich repeat-containing protein phosphatase, complete cds, without stop codon, in Flexi system.
JD127631 - Sequence 108655 from Patent EP1572962.
JD125431 - Sequence 106455 from Patent EP1572962.
JD095736 - Sequence 76760 from Patent EP1572962.
JD184477 - Sequence 165501 from Patent EP1572962.
JD282638 - Sequence 263662 from Patent EP1572962.
BC082244 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone IMAGE:4641238), partial cds.
KT900854 - Homo sapiens clone S11-1 L1-chimeric transcript sequence.
BC047653 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone IMAGE:5259974), partial cds.
BC063519 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone IMAGE:4341956), partial cds.
BC010706 - Homo sapiens PH domain and leucine rich repeat protein phosphatase, mRNA (cDNA clone IMAGE:3874711), partial cds.
AK124714 - Homo sapiens cDNA FLJ42724 fis, clone BRAWH2000370.
JD096274 - Sequence 77298 from Patent EP1572962.
JD052418 - Sequence 33442 from Patent EP1572962.
JD494583 - Sequence 475607 from Patent EP1572962.
JD389460 - Sequence 370484 from Patent EP1572962.
JD253602 - Sequence 234626 from Patent EP1572962.
JD451753 - Sequence 432777 from Patent EP1572962.
JD216752 - Sequence 197776 from Patent EP1572962.
JD300067 - Sequence 281091 from Patent EP1572962.
JD161232 - Sequence 142256 from Patent EP1572962.
JD156768 - Sequence 137792 from Patent EP1572962.

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

Protein O60346 (Reactome details) participates in the following event(s):

R-HSA-199425 PHLPP dephosphorylates S473 in AKT
R-HSA-199418 Negative regulation of the PI3K/AKT network
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A1A4F5, KIAA0606, NM_194449, NP_919431, O60346, PHLP1_HUMAN, PHLPP, PLEKHE1, Q641Q7, Q6P4C4, Q6PJI6, Q86TN6, Q96FK2, Q9NUY1, SCOP
UCSC ID: uc021ule.1
RefSeq Accession: NM_194449
Protein: O60346 (aka PHLP1_HUMAN)
CCDS: CCDS45881.2

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_194449.3
exon count: 17CDS single in 3' UTR: no RNA size: 6411
ORF size: 5154CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 9352.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.