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Aliases for PPM1D Gene

Aliases for PPM1D Gene

  • Protein Phosphatase, Mg2+/Mn2+ Dependent, 1D 2 3
  • WIP1 3 4 6
  • Protein Phosphatase 1D Magnesium-Dependent, Delta Isoform 2 3
  • Wild-Type P53-Induced Phosphatase 1 2 3
  • PP2C-DELTA 3 4
  • Protein Phosphatase Magnesium-Dependent 1 Delta 4
  • Protein Phosphatase 2C Delta Isoform 3
  • Protein Phosphatase 2C Isoform Delta 4
  • P53-Induced Protein Phosphatase 1 4
  • Protein Phosphatase Wip1 3
  • Protein Phosphatase 2C 2
  • Protein Phosphatase 1D 3
  • Delta Isoform 2
  • EC 4

External Ids for PPM1D Gene

Previous GeneCards Identifiers for PPM1D Gene

  • GC17P058414
  • GC17P061129
  • GC17P059019
  • GC17P059151
  • GC17P056032
  • GC17P058677
  • GC17P054048

Summaries for PPM1D Gene

Entrez Gene Summary for PPM1D Gene

  • 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]

GeneCards Summary for PPM1D Gene

PPM1D (Protein Phosphatase, Mg2+/Mn2+ Dependent, 1D) is a Protein Coding gene. Diseases associated with PPM1D include breast cancer. Among its related pathways are Cell Cycle / Checkpoint Control and p53 pathway. GO annotations related to this gene include protein serine/threonine phosphatase activity. An important paralog of this gene is PPM1G.

UniProtKB/Swiss-Prot for PPM1D Gene

  • Required for the relief of p53-dependent checkpoint mediated cell cycle arrest. Binds to and dephosphorylates Ser-15 of TP53 and Ser-345 of CHEK1 which contributes to the functional inactivation of these proteins.

Gene Wiki entry for PPM1D Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PPM1D Gene

Genomics for PPM1D Gene

Regulatory Elements for PPM1D Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for PPM1D Gene

60,600,183 bp from pter
60,666,280 bp from pter
66,098 bases
Plus strand

Genomic View for PPM1D Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for PPM1D Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PPM1D Gene

Proteins for PPM1D Gene

  • Protein details for PPM1D Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Protein phosphatase 1D
    Protein Accession:
    Secondary Accessions:
    • Q53XP4
    • Q6P991
    • Q8IVR6

    Protein attributes for PPM1D Gene

    605 amino acids
    Molecular mass:
    66675 Da
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420; Name=Mn(2+); Xref=ChEBI:CHEBI:29035; Note=Binds 2 magnesium or manganese ions per subunit.;
    Quaternary structure:
    • Interacts with CHEK1 and CHEK2; dephosphorylates them.

    Alternative splice isoforms for PPM1D Gene


neXtProt entry for PPM1D Gene

Proteomics data for PPM1D Gene at MOPED

Post-translational modifications for PPM1D Gene

  • Ubiquitination at Lys238
  • Modification sites at PhosphoSitePlus

Other Protein References for PPM1D Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for PPM1D Gene

Domains for PPM1D Gene

Gene Families for PPM1D Gene

  • PPM :Serine/threonine phosphatases / Protein phosphatases, Mg2+/Mn2+ dependent

Protein Domains for PPM1D Gene

Graphical View of Domain Structure for InterPro Entry



  • O15297
  • Contains 1 PPM-type phosphatase domain.
  • Belongs to the PP2C family.
genes like me logo Genes that share domains with PPM1D: view

Function for PPM1D Gene

Molecular function for PPM1D Gene

UniProtKB/Swiss-Prot CatalyticActivity: [a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate
UniProtKB/Swiss-Prot Function: Required for the relief of p53-dependent checkpoint mediated cell cycle arrest. Binds to and dephosphorylates Ser-15 of TP53 and Ser-345 of CHEK1 which contributes to the functional inactivation of these proteins.
UniProtKB/Swiss-Prot Induction: By p53/TP53.

Enzyme Numbers (IUBMB) for PPM1D Gene

Gene Ontology (GO) - Molecular Function for PPM1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003824 catalytic activity --
GO:0004722 protein serine/threonine phosphatase activity IDA 20801214
GO:0005515 protein binding IPI 17936559
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with PPM1D: view
genes like me logo Genes that share phenotypes with PPM1D: view

Animal Models for PPM1D Gene

MGI Knock Outs for PPM1D:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PPM1D

In Situ Assay Products

Flow Cytometry Products

No data available for Transcription Factor Targeting and HOMER Transcription for PPM1D Gene

Localization for PPM1D Gene

Subcellular locations from

Jensen Localization Image for PPM1D Gene COMPARTMENTS Subcellular localization image for PPM1D gene
Compartment Confidence
nucleus 4
cytosol 2
endoplasmic reticulum 1

Gene Ontology (GO) - Cellular Components for PPM1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus TAS 9177166
genes like me logo Genes that share ontologies with PPM1D: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PPM1D Gene

Pathways for PPM1D Gene

genes like me logo Genes that share pathways with PPM1D: view

Pathways by source for PPM1D Gene

1 Cell Signaling Technology pathway for PPM1D Gene
1 BioSystems pathway for PPM1D Gene
1 KEGG pathway for PPM1D Gene

PCR Array Products

Gene Ontology (GO) - Biological Process for PPM1D Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000086 G2/M transition of mitotic cell cycle IEA --
GO:0006470 protein dephosphorylation TAS 9177166
GO:0008152 metabolic process --
GO:0008285 negative regulation of cell proliferation TAS 9177166
GO:0009314 response to radiation TAS 9177166
genes like me logo Genes that share ontologies with PPM1D: view

Compounds for PPM1D Gene

(5) HMDB Compounds for PPM1D Gene

Compound Synonyms Cas Number PubMed IDs
  • Ca
  • Magnesium
  • manganese
  • NFB Orthophosphate
  • Dihydrogen oxide

(2) Novoseek inferred chemical compound relationships for PPM1D Gene

Compound -log(P) Hits PubMed IDs
threonine 61.7 10
serine 44.1 7
genes like me logo Genes that share compounds with PPM1D: view

Transcripts for PPM1D Gene

mRNA/cDNA for PPM1D Gene

Unigene Clusters for PPM1D Gene

Protein phosphatase, Mg2+/Mn2+ dependent, 1D:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for PPM1D

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PPM1D Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b
SP1: - -
SP2: - - -
SP3: -

Relevant External Links for PPM1D Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PPM1D Gene

mRNA expression in normal human tissues for PPM1D Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for PPM1D Gene

SOURCE GeneReport for Unigene cluster for PPM1D Gene Hs.286073

genes like me logo Genes that share expressions with PPM1D: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for PPM1D Gene

Orthologs for PPM1D Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for PPM1D Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PPM1D 35
  • 99.5 (n)
  • 99.34 (a)
PPM1D 36
  • 97 (a)
(Bos Taurus)
Mammalia PPM1D 35
  • 89.81 (n)
  • 91.9 (a)
PPM1D 36
  • 91 (a)
(Canis familiaris)
Mammalia PPM1D 35
  • 93.06 (n)
  • 94.38 (a)
PPM1D 36
  • 94 (a)
(Mus musculus)
Mammalia Ppm1d 35
  • 87.19 (n)
  • 89.93 (a)
Ppm1d 16
Ppm1d 36
  • 89 (a)
(Monodelphis domestica)
Mammalia PPM1D 36
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia PPM1D 36
  • 75 (a)
(Rattus norvegicus)
Mammalia Ppm1d 35
  • 87.7 (n)
  • 90.94 (a)
(Gallus gallus)
Aves PPM1D 35
  • 72.71 (n)
  • 75.96 (a)
PPM1D 36
  • 76 (a)
(Anolis carolinensis)
Reptilia PPM1D 36
  • 69 (a)
African clawed frog
(Xenopus laevis)
Amphibia ppm1d-prov 35
tropical clawed frog
(Silurana tropicalis)
Amphibia ppm1d 35
  • 64.65 (n)
  • 66.3 (a)
(Danio rerio)
Actinopterygii ppm1da 35
  • 61.68 (n)
  • 63.64 (a)
ppm1da 36
  • 51 (a)
ppm1db 36
  • 53 (a)
zgc55836 35
fruit fly
(Drosophila melanogaster)
Insecta Pp2C1 36
  • 11 (a)
Pp2C1 37
  • 47 (a)
(Caenorhabditis elegans)
Secernentea Y54F10BM.1 36
  • 18 (a)
Y54F10BM.1 37
  • 38 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PTC4 36
  • 16 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.6123 35
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 20 (a)
Species with no ortholog for PPM1D:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PPM1D Gene

Gene Tree for PPM1D (if available)
Gene Tree for PPM1D (if available)

Paralogs for PPM1D Gene

Paralogs for PPM1D Gene

genes like me logo Genes that share paralogs with PPM1D: view

Variants for PPM1D Gene

Sequence variations from dbSNP and Humsavar for PPM1D Gene

SNP ID Clin Chr 17 pos Sequence Context AA Info Type MAF
rs1058864 -- 60,665,562(+) TTTTG(A/C)AGAAG utr-variant-3-prime
rs1308169 -- 60,600,041(+) GGAGG(C/G)AGCGC upstream-variant-2KB
rs1494959 -- 60,601,633(+) TCCCA(A/C)CCGGT intron-variant
rs1826706 -- 60,652,321(-) aaaaa(A/G)aatga intron-variant
rs1960355 -- 60,652,495(-) caaca(A/G)aaaga intron-variant

Relevant External Links for PPM1D Gene

HapMap Linkage Disequilibrium report
Human Gene Mutation Database (HGMD)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Structural Variations from Database of Genomic Variants (DGV) for PPM1D Gene

Disorders for PPM1D Gene

MalaCards: The human disease database

MalaCards: The human disease database. (1) Diseases for PPM1D Gene including...

Search for PPM1D Gene in MalaCards »

(1) OMIM Diseases for PPM1D Gene (605100)

(4) Novoseek inferred disease relationships for PPM1D Gene

Disease -log(P) Hits PubMed IDs
medulloblastoma 51.7 5
tumors 29.5 13
breast cancer 27.4 11
cancer 18.9 7

Relevant External Links for PPM1D

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
genes like me logo Genes that share disorders with PPM1D: view

No data available for UniProtKB/Swiss-Prot for PPM1D Gene

Publications for PPM1D Gene

  1. PPM1D dephosphorylates Chk1 and p53 and abrogates cell cycle checkpoints. (PMID: 15870257) Lu X. … Donehower L.A. (Genes Dev. 2005) 3 4 23
  2. Regulation of the antioncogenic Chk2 kinase by the oncogenic Wip1 phosphatase. (PMID: 16311512) Fujimoto H. … Minami Y. (Cell Death Differ. 2006) 3 4 23
  3. Wip1, a novel human protein phosphatase that is induced in response to ionizing radiation in a p53-dependent manner. (PMID: 9177166) Fiscella M. … Appella E. (Proc. Natl. Acad. Sci. U.S.A. 1997) 2 3 4
  4. Arsenic trioxide augments Chk2/p53-mediated apoptosis by inhibiting oncogenic Wip1 phosphatase. (PMID: 18482988) Yoda A. … Minami Y. (J. Biol. Chem. 2008) 3 23
  5. Characterization of the active site and a unique uncompetitive inhibitor of the PPM1-type protein phosphatase PPM1D. (PMID: 18991770) Chuman Y. … Sakaguchi K. (Protein Pept. Lett. 2008) 3 23

Products for PPM1D Gene

  • Addgene plasmids for PPM1D

Sources for PPM1D Gene

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