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PPM1D protein phosphatase, Mg2+/Mn2+ dependent 1D [ Homo sapiens (human) ]

Gene ID: 8493, updated on 26-Aug-2018

Summary

Official Symbol
PPM1Dprovided by HGNC
Official Full Name
protein phosphatase, Mg2+/Mn2+ dependent 1Dprovided by HGNC
Primary source
HGNC:HGNC:9277
See related
Ensembl:ENSG00000170836 MIM:605100; Vega:OTTHUMG00000180052
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
WIP1; IDDGIP; PP2C-DELTA
Summary
The protein encoded by this gene is a member of the PP2C family of Ser/Thr protein phosphatases. PP2C family members are known to be negative regulators of cell stress response pathways. The expression of this gene is induced in a p53-dependent manner in response to various environmental stresses. While being induced by tumor suppressor protein TP53/p53, this phosphatase negatively regulates the activity of p38 MAP kinase, MAPK/p38, through which it reduces the phosphorylation of p53, and in turn suppresses p53-mediated transcription and apoptosis. This phosphatase thus mediates a feedback regulation of p38-p53 signaling that contributes to growth inhibition and the suppression of stress induced apoptosis. This gene is located in a chromosomal region known to be amplified in breast cancer. The amplification of this gene has been detected in both breast cancer cell line and primary breast tumors, which suggests a role of this gene in cancer development. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in testis (RPKM 7.0), ovary (RPKM 5.5) and 25 other tissues See more
Orthologs

Genomic context

See PPM1D in Genome Data Viewer
Location:
17q23.2
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCh38.p12 (GCF_000001405.38) 17 NC_000017.11 (60600183..60666280)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (58677544..58743641)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene splicing factor 3B subunit 6 pseudogene Neighboring gene amyloid beta precursor protein binding protein 2 Neighboring gene long intergenic non-protein coding RNA 1999 Neighboring gene ribosomal protein SA pseudogene 66 Neighboring gene RNA, U6 small nuclear 623, pseudogene Neighboring gene RNA, 7SL, cytoplasmic 606, pseudogene Neighboring gene ribosomal protein L36a pseudogene 46 Neighboring gene BCAS3, microtubule associated cell migration factor

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Jun 15 11:32:44 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • ATM Signaling Network in Development and Disease, organism-specific biosystem (from WikiPathways)
    ATM Signaling Network in Development and Disease, organism-specific biosystemThis pathway is modeled after Figure 4 in the article "The ATM signaling network in development and disease" (See Bibliography). When DNA is damaged, DDR begins to work on recuperating the damage th...
  • p53 pathway, organism-specific biosystem (from Pathway Interaction Database)
    p53 pathway, organism-specific biosystem
    p53 pathway
  • p53 signaling pathway, organism-specific biosystem (from KEGG)
    p53 signaling pathway, organism-specific biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...
  • p53 signaling pathway, conserved biosystem (from KEGG)
    p53 signaling pathway, conserved biosystemp53 activation is induced by a number of stress signals, including DNA damage, oxidative stress and activated oncogenes. The p53 protein is employed as a transcriptional activator of p53-regulated ge...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
mitogen-activated protein kinase binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein serine/threonine kinase activity TAS
Traceable Author Statement
more info
 
protein serine/threonine phosphatase activity IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
DNA methylation ISS
Inferred from Sequence or Structural Similarity
more info
 
G2/M transition of mitotic cell cycle IEA
Inferred from Electronic Annotation
more info
 
cellular response to starvation IEA
Inferred from Electronic Annotation
more info
 
chromatin silencing ISS
Inferred from Sequence or Structural Similarity
more info
 
negative regulation of cell proliferation TAS
Traceable Author Statement
more info
PubMed 
negative regulation of gene expression, epigenetic IMP
Inferred from Mutant Phenotype
more info
PubMed 
peptidyl-threonine dephosphorylation IDA
Inferred from Direct Assay
more info
PubMed 
protein dephosphorylation TAS
Traceable Author Statement
more info
PubMed 
protein phosphorylation IEA
Inferred from Electronic Annotation
more info
 
response to bacterium IEA
Inferred from Electronic Annotation
more info
 
response to radiation TAS
Traceable Author Statement
more info
PubMed 
transcription initiation from RNA polymerase II promoter TAS
Traceable Author Statement
more info
 
Component Evidence Code Pubs
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein phosphatase 1D
Names
protein phosphatase 1D magnesium-dependent, delta isoform
protein phosphatase 2C delta isoform
protein phosphatase Wip1
wild-type p53-induced phosphatase 1
NP_003611.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_023265.1 RefSeqGene

    Range
    4991..71088
    Download
    GenBank, FASTA, Sequence Viewer (Graphics), LRG_770

mRNA and Protein(s)

  1. NM_003620.3NP_003611.1  protein phosphatase 1D

    See identical proteins and their annotated locations for NP_003611.1

    Status: REVIEWED

    Source sequence(s)
    AC110602, BC060877, BU616782, U78305
    Consensus CDS
    CCDS11625.1
    UniProtKB/Swiss-Prot
    O15297
    UniProtKB/TrEMBL
    A0A0S2Z4M2
    Related
    ENSP00000306682.2, OTTHUMP00000263204, ENST00000305921.7, OTTHUMT00000449474
    Conserved Domains (1) summary
    pfam00481
    Location:67368
    PP2C; Protein phosphatase 2C

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p12 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p12 Primary Assembly

    Range
    60600183..60666280
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_934577.2 RNA Sequence

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