PPM1D
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Also known as Wip1PP2C-DELTA
Summary
PPM1D (protein phosphatase, Mg2+/Mn2+ dependent 1D, HGNC:9277) is a protein-coding gene on chromosome 17q23.3, encoding Protein phosphatase 1D (O15297). Involved in the negative regulation of p53 expression. It is a selective cancer dependency (DepMap: 15.7% of cell lines).
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.
Source: NCBI Gene 8493 — RefSeq curated summary.
At a glance
- Gene–disease (curated): syndromic intellectual disability (Definitive, ClinGen) — +2 more curated relationships
- GWAS associations: 1
- Clinical variants (ClinVar): 392 total — 32 pathogenic, 33 likely-pathogenic
- Phenotypes (HPO): 37
- Druggable target: yes
- Cancer driver (intOGen): loss-of-function (tumor-suppressor-like) across 5 cancer types
- Cancer dependency (DepMap): dependent in 15.7% of screened cell lines
- Dosage sensitivity (ClinGen): haploinsufficiency no evidence, triplosensitivity no evidence
- MANE Select transcript:
NM_003620
Identifiers
Gene identifiers
| Field | Value |
|---|---|
| HGNC ID | HGNC:9277 |
| Approved symbol | PPM1D |
| Name | protein phosphatase, Mg2+/Mn2+ dependent 1D |
| Location | 17q23.3 |
| Locus type | gene with protein product |
| Status | Approved |
| Aliases | Wip1, PP2C-DELTA |
| Ensembl gene | ENSG00000170836 |
| Ensembl biotype | protein_coding |
| OMIM | 605100 |
| Entrez | 8493 |
Gene structure
Transcript identifiers
Ensembl transcripts: 15 — 7 nonsense_mediated_decay, 5 protein_coding, 2 retained_intron, 1 protein_coding_CDS_not_defined
ENST00000305921, ENST00000392995, ENST00000590418, ENST00000629650, ENST00000685212, ENST00000685582, ENST00000686064, ENST00000687355, ENST00000688505, ENST00000689445, ENST00000692386, ENST00000693102, ENST00000693196, ENST00000870218, ENST00000870219
RefSeq mRNA: 1 — MANE Select: NM_003620
NM_003620
CCDS: CCDS11625
Canonical transcript exons
ENST00000305921 — 6 exons
| Exon | Start | End |
|---|---|---|
| ENSE00001132631 | 60656599 | 60656841 |
| ENSE00001205615 | 60662995 | 60666280 |
| ENSE00001261945 | 60647892 | 60648082 |
| ENSE00001261954 | 60633853 | 60633977 |
| ENSE00001261964 | 60623521 | 60623749 |
| ENSE00003896583 | 60600193 | 60600886 |
Expression profiles
Bgee: expression breadth ubiquitous, 267 present calls, max score 93.12.
FANTOM5 (CAGE): breadth ubiquitous, TPM avg 25.9965 / max 347.9986, expressed in 1793 samples.
FANTOM5 promoters (3 alternative TSS)
| Promoter ID | TPM avg | Samples expressed |
|---|---|---|
| 162051 | 15.3500 | 1727 |
| 162052 | 6.6823 | 1472 |
| 162053 | 3.9642 | 1043 |
Top tissues by expression
289 total, by Bgee expression score (0-100, higher = more expressed):
| Tissue | Anatomy ID | Expression score | Quality |
|---|---|---|---|
| secondary oocyte | CL:0000655 | 93.12 | gold quality |
| amniotic fluid | UBERON:0000173 | 89.88 | gold quality |
| endometrium epithelium | UBERON:0004811 | 89.25 | gold quality |
| ventricular zone | UBERON:0003053 | 88.42 | gold quality |
| primordial germ cell in gonad | CL:0000670 ∩ UBERON:0000991 | 86.88 | gold quality |
| placenta | UBERON:0001987 | 86.82 | gold quality |
| ganglionic eminence | UBERON:0004023 | 86.21 | gold quality |
| mucosa of sigmoid colon | UBERON:0004993 | 86.13 | gold quality |
| embryo | UBERON:0000922 | 85.78 | gold quality |
| jejunal mucosa | UBERON:0000399 | 85.47 | gold quality |
| germinal epithelium of ovary | UBERON:0001304 | 85.33 | gold quality |
| calcaneal tendon | UBERON:0003701 | 84.83 | gold quality |
| colonic mucosa | UBERON:0000317 | 84.52 | gold quality |
| cartilage tissue | UBERON:0002418 | 83.87 | gold quality |
| esophagus squamous epithelium | UBERON:0006920 | 83.51 | gold quality |
| adult organism | UBERON:0007023 | 83.43 | gold quality |
| pigmented layer of retina | UBERON:0001782 | 83.25 | gold quality |
| colonic epithelium | UBERON:0000397 | 82.91 | gold quality |
| cortical plate | UBERON:0005343 | 82.81 | gold quality |
| visceral pleura | UBERON:0002401 | 82.66 | gold quality |
| sperm | CL:0000019 | 82.64 | gold quality |
| pleura | UBERON:0000977 | 82.15 | gold quality |
| parietal pleura | UBERON:0002400 | 82.00 | gold quality |
| trabecular bone tissue | UBERON:0002483 | 81.93 | gold quality |
| monocyte | CL:0000576 | 81.85 | gold quality |
| leukocyte | CL:0000738 | 81.75 | gold quality |
| tibia | UBERON:0000979 | 81.73 | gold quality |
| cauda epididymis | UBERON:0004360 | 81.72 | gold quality |
| ovary | UBERON:0000992 | 81.67 | gold quality |
| mononuclear cell | CL:0000842 | 81.60 | gold quality |
Single-cell (SCXA)
Detected in 1 experiment(s), a significant marker in 1.
| Experiment | Marker? | Max mean expression |
|---|---|---|
| E-ANND-3 | yes | 4.65 |
Regulation
Is transcription factor: no
Upstream regulators (CollecTRI, top): CREB1, DDIT3, ESR1, JUN, NCOA1, NCOR2, NFKB, NR4A1, PARP1, TP53
miRNA regulators (miRDB)
145 targeting PPM1D, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):
| miRNA | Max score | Avg score | miRNA target_count |
|---|---|---|---|
| HSA-MIR-5692A | 100.00 | 74.40 | 6850 |
| HSA-MIR-3163 | 100.00 | 77.23 | 8605 |
| HSA-LET-7A-3P | 100.00 | 74.03 | 3932 |
| HSA-LET-7B-3P | 100.00 | 74.08 | 3913 |
| HSA-LET-7F-1-3P | 100.00 | 74.02 | 3928 |
| HSA-MIR-98-3P | 100.00 | 74.08 | 3907 |
| HSA-MIR-4425 | 100.00 | 67.59 | 1049 |
| HSA-MIR-29A-3P | 100.00 | 73.11 | 1835 |
| HSA-MIR-29B-3P | 100.00 | 73.18 | 1833 |
| HSA-MIR-29C-3P | 100.00 | 73.15 | 1833 |
| HSA-MIR-3613-3P | 100.00 | 76.36 | 7965 |
| HSA-MIR-4668-3P | 100.00 | 68.74 | 2635 |
| HSA-MIR-371B-5P | 99.99 | 75.34 | 4759 |
| HSA-MIR-12136 | 99.98 | 72.81 | 5713 |
| HSA-MIR-616-5P | 99.98 | 75.58 | 4775 |
| HSA-MIR-373-5P | 99.98 | 75.36 | 4753 |
| HSA-MIR-4803 | 99.98 | 71.99 | 3117 |
| HSA-MIR-1468-3P | 99.96 | 72.74 | 3797 |
| HSA-MIR-495-3P | 99.96 | 72.81 | 4197 |
| HSA-MIR-5688 | 99.96 | 73.23 | 4504 |
| HSA-MIR-4666A-3P | 99.96 | 71.71 | 3434 |
| HSA-MIR-590-3P | 99.96 | 74.34 | 6478 |
| HSA-MIR-3658 | 99.96 | 73.87 | 4379 |
| HSA-MIR-767-5P | 99.95 | 70.85 | 993 |
| HSA-MIR-381-3P | 99.93 | 71.87 | 2854 |
| HSA-MIR-6744-5P | 99.93 | 66.82 | 748 |
| HSA-MIR-300 | 99.92 | 71.76 | 2856 |
| HSA-MIR-205-3P | 99.92 | 69.92 | 3165 |
| HSA-MIR-497-5P | 99.92 | 71.83 | 2674 |
| HSA-MIR-10527-5P | 99.91 | 72.28 | 3754 |
Functional genomics
ClinGen dosage: haploinsufficiency 0 (no evidence), triplosensitivity 0 (no evidence). ClinGen Gene Dosage Map
DepMap (CRISPR cell-line fitness): dependent in 15.7% of screened cell lines.
Literature-anchored findings (GeneRIF, showing 40)
- Functional study of the mouse homolog (PMID:11809801)
- PPM1D, encoding a serine/threonine protein phosphatase, lies within an epicenter of the region at 17q23, is amplified in breast cancer (PMID:12021784)
- PPM1D amplification contributes to the development of human cancers by suppressing p53 activation (PMID:12021785)
- ablation of gene confers resistance to breast tumors induced by certain oncogenes (PMID:15054481)
- Data demonstrate that p53-induced phosphatase PPM1D interacts with the nuclear isoform of uracil DNA glycosylase, UNG2, and suppresses base excision repair. (PMID:15327777)
- suggest that substrate recognition by Wip1 is centered toward a very narrow region around the pTXpY sequence (PMID:15807522)
- Primary function of PPM1D is to reverse the p53 and Chk1-induced DNA damage and cell cycle checkpoint responses and return the cell to a homeostatic state following completion of DNA repair. (PMID:15870257)
- PPM1D is frequently activated through amplification in aggressive primary breast tumours (PMID:16254685)
- Wip1 acts as a negative regulator of Chk2 and inhibition of Wip1 expression by RNA interference results in abnormally sustained Thr68 phosphorylation of Chk2. (PMID:16311512)
- Increased protein-levels of PPM1D may link the TP53 and RB1 tumor suppressor pathways to medulloblastoma pathomechanisms. (PMID:16314645)
- Demonstrated the ability of protein phosphatase 1D magnesium-dependent, delta isoform (PPM1D) to positively modulate the activity of type I and II nuclear receptors. (PMID:16352595)
- PPM1D promotes breast tumor growth both by inhibiting p53 activity and by enhancing steroid hormone receptor action (PMID:16352595)
- an intrinsic kinase activity of Chk2, but not phosphatase activity of Wip1, is required for the association of fulllength Chk2 and Wip1 (PMID:16798742)
- Wip1 overexpression abrogates the homeostatic balance maintained through the p38-p53-Wip1 pathway, and contributes to malignant progression by inactivating wild-type p53 and p38 MAPK as well as decreasing p16 protein levels in human breast tissues. (PMID:16897432)
- E2F and Wip1 are modulators of E2F1-induced apoptosis involving p38 MAP kinase (PMID:16912047)
- These results indicate that Wip1 is one of the phosphatases regulating the activity of Chk2 in response to DNA damage. (PMID:16936775)
- Wip1 phosphatase is an integral component of an ATM-dependent signaling pathway. (PMID:16949371)
- Operates within the map kinase kinase 6/p38 map kinase signaling pathway to promote ErbB2-driven mammary gland tumorigenesis in transgenic mice. (PMID:17016428)
- WIP1 is expressed in non-neoplastic gastric mucosa and is frequently overexpressed in gastric cancers. (PMID:17685927)
- Wip1 acts as a gatekeeper in the Mdm2-p53 regulatory loop by stabilizing Mdm2 and promoting Mdm2-mediated proteolysis of p53. (PMID:17936559)
- The Wip1 phosphatase PPM1D dephosphorylates SQ/TQ motifs in checkpoint substrates phosphorylated by PI3K-like kinases. (PMID:17939684)
- PPM1D contributes to breast cancer associated phenotypic characteristics by directly or indirectly affecting several important cellular signaling pathways. (PMID:17977650)
- Our findings demonstrate that PPM1D is involved in the regulation of cell proliferation in breast cancer in a p53-dependent manner and that overexpression of PPM1D contributes to malignant phenotype by promoting sustained cell growth and cell survival. (PMID:18328948)
- ATO-induced activation of Chk2/p53 and p38 MAPK/p53 apoptotic pathways can be enhanced by siRNA-mediated suppression of Wip1 expression, further indicating that ATO inhibits Wip1 phosphatase in vivo (PMID:18482988)
- PPM1D430, a novel alternative splicing variant of the human PPM1D, can dephosphorylate p53 and exhibits specific tissue expression (PMID:18845566)
- identification of the active center and further elucidation of the substrate preference of PPM1D; findings showed that the putative active site residues of PPM1D are highly conserved among the PPM1 family members (PMID:18991770)
- Characterization of a conserved p53 response element located in the 5’ untranslated region of the PPM1D gene that is required for the p53-dependent induction of transcription from the human PPM1D promoter. (PMID:19015127)
- WIP1 is a direct phosphatase of Ser 536 of the p65 subunit of NF-kappaB and negatively regulates NF-kappaB signalling. (PMID:19377466)
- Results indicate that Wip1 up-regulation is important in the pathogenesis of p53(+) and ER(+) breast cancer through the inactivation of p53 by dephosphorylation and the amplification of subsequent estrogenic effects through the E(2)-ERalpha-Wip1 pathway. (PMID:19435816)
- Findings uncover Wip1 as a first in class recovery competence gene, and suggest that the principal function of Wip1 in cellular transformation is to retain proliferative capacity in the face of oncogene-induced stress. (PMID:19713933)
- Nuclear factor-kappaB (NF-kappaB) is a novel positive transcriptional regulator of the oncogenic Wip1 phosphatase (PMID:20007970)
- Wip1 (wild-type p53-induced phosphatase) expression is temporally induced by c-Jun and p53 in response to UV irradiation (PMID:20093361)
- Wip1 has an essential role in dephosphorylation of gamma-H2AX to silence the checkpoint and restore chromatin structure once DNA damage is repaired. (PMID:20101220)
- Wild-type p53-induced phosphatase 1 dephosphorylates histone variant gamma-H2AX and suppresses DNA double strand break repair. (PMID:20118229)
- The high expression of Wip1 mRNA and its protein in breast cancer tissue may promote the growth of breast cancer. (PMID:20367961)
- PPM1D is consistently overexpressed when amplified in breast cancer; however, PPM1D overexpression is more pervasive than gene amplification. (PMID:20543821)
- results suggest an important role of miR-16 in the regulation of Wip1 phosphatase in the DNA damage response and mammary tumorigenesis. (PMID:20668064)
- the increased expression of Wip1 in cancer epithelial cells has significant value for tumor progression and the clinical prognosis of patients with primary lung adenocarcinoma (PMID:21281403)
- the ability of LZAP to alter p38 phosphorylation depended, at least partially, on the p38 phosphatase, Wip1 (PMID:21283629)
- Down-regulation of PPM1D resulted in significantly increased cell apoptosis and reduced cell proliferation and invasion potential in U87-MG cells. (PMID:21336731)
Cross-species orthologs
6 orthologs
| Organism | Symbol | Gene ID |
|---|---|---|
| danio_rerio | ppm1da | ENSDARG00000009273 |
| danio_rerio | ppm1db | ENSDARG00000021380 |
| mus_musculus | Ppm1d | ENSMUSG00000020525 |
| rattus_norvegicus | Ppm1d | ENSRNOG00000003329 |
| drosophila_melanogaster | Pp2C1 | FBGN0022768 |
| caenorhabditis_elegans | WBGENE00021856 |
Paralogs (16): PPM1F (ENSG00000100034), TAB1 (ENSG00000100324), PPM1A (ENSG00000100614), PPM1H (ENSG00000111110), PPM1G (ENSG00000115241), ILKAP (ENSG00000132323), PPM1B (ENSG00000138032), PPM1J (ENSG00000155367), PPM1L (ENSG00000163590), PPM1K (ENSG00000163644), PPM1M (ENSG00000164088), PDP1 (ENSG00000164951), PDP2 (ENSG00000172840), PPM1E (ENSG00000175175), PP2D1 (ENSG00000183977), PPM1N (ENSG00000213889)
Protein
Protein identifiers
Protein phosphatase 1D — O15297 (reviewed: O15297)
Alternative names: Protein phosphatase 2C isoform delta, Protein phosphatase magnesium-dependent 1 delta, p53-induced protein phosphatase 1
All UniProt accessions (10): O15297, A0A0S2Z4M2, A0A0S2Z4W0, A0A8I5KNX5, A0A8I5KT72, A0A8I5KUN6, A0A8I5KUX8, A0A8I5QJK9, A0A8I5QKP1, A0A8J9C7E3
UniProt curated annotations — full annotation on UniProt →
Function. Involved in the negative regulation of p53 expression. 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. Mediates MAPK14 dephosphorylation and inactivation. Is also an important regulator of global heterochromatin silencing and critical in maintaining genome integrity.
Subunit / interactions. Interacts with CHEK1 and CHEK2; dephosphorylates them. Interacts with MAPK14.
Subcellular location. Nucleus. Cytoplasm. Cytosol.
Tissue specificity. Expressed in fetal and adult brain. Also detected in fetal liver and skeletal muscle, but not in their adult counterparts.
Disease relevance. Jansen-de Vries syndrome (JDVS) [MIM:617450] An autosomal dominant neurodevelopmental disorder characterized by mild to severe intellectual disability, psychomotor developmental delay, speech delay, and behavioral manifestations including attention deficit-hyperactivity disorder, autism and anxiety disorders. Most patients have variable additional features, including feeding and gastrointestinal difficulties, high pain threshold, hypersensitivity to sound, hypotonia, broad-based gait, and dysmorphic features, including mild facial abnormalities, strabismus, and small hands and feet. The disease is caused by variants affecting the gene represented in this entry. Breast cancer (BC) [MIM:114480] A common malignancy originating from breast epithelial tissue. Breast neoplasms can be distinguished by their histologic pattern. Invasive ductal carcinoma is by far the most common type. Breast cancer is etiologically and genetically heterogeneous. Important genetic factors have been indicated by familial occurrence and bilateral involvement. Mutations at more than one locus can be involved in different families or even in the same case. Disease susceptibility may be associated with variants affecting the gene represented in this entry. Ovarian cancer (OC) [MIM:167000] The term ovarian cancer defines malignancies originating from ovarian tissue. Although many histologic types of ovarian tumors have been described, epithelial ovarian carcinoma is the most common form. Ovarian cancers are often asymptomatic and the recognized signs and symptoms, even of late-stage disease, are vague. Consequently, most patients are diagnosed with advanced disease. Disease susceptibility may be associated with variants affecting the gene represented in this entry.
Cofactor. Binds 2 magnesium or manganese ions per subunit.
Induction. By p53/TP53.
Similarity. Belongs to the PP2C family.
Isoforms (2)
| UniProt ID | Names | Canonical? |
|---|---|---|
| O15297-1 | 1 | yes |
| O15297-2 | 2 |
RefSeq proteins (1): NP_003611* (*=MANE)
Domains & families (InterPro)
| ID | Name | Type |
|---|---|---|
| IPR000222 | PP2C_BS | Binding_site |
| IPR001932 | PPM-type_phosphatase-like_dom | Domain |
| IPR015655 | PP2C | Family |
| IPR036457 | PPM-type-like_dom_sf | Homologous_superfamily |
Pfam: PF00481
Catalyzed reactions (Rhea), 2 shown:
- O-phospho-L-seryl-[protein] + H2O = L-seryl-[protein] + phosphate (RHEA:20629)
- O-phospho-L-threonyl-[protein] + H2O = L-threonyl-[protein] + phosphate (RHEA:47004)
UniProt features (58 total): strand 14, sequence variant 11, helix 10, binding site 5, turn 5, region of interest 3, compositionally biased region 3, modified residue 2, splice variant 2, chain 1, domain 1, mutagenesis site 1
Structure
Experimental structures (PDB)
1 structures.
| PDB | Method | Resolution (Å) |
|---|---|---|
| 8T2J | X-RAY DIFFRACTION | 1.8 |
Predicted structure (AlphaFold)
| Model | pLDDT | Fraction very-high |
|---|---|---|
| AF-O15297-F1 | 68.15 | 0.43 |
Functional residue map
Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.
Ligand- & substrate-binding residues (5): 106; 314; 366; 105; 105
Post-translational modifications (2): 40, 85
Mutagenesis-validated functional residues (1):
| Position | Phenotype |
|---|---|
| 314 | abrogates phosphatase activity. |
Function
Pathways and Gene Ontology
Reactome pathways
1 pathways
| ID | Pathway |
|---|---|
| R-HSA-8878166 | Transcriptional regulation by RUNX2 |
MSigDB gene sets: 381 (showing top):
TGGTGCT_MIR29A_MIR29B_MIR29C, RNGTGGGC_UNKNOWN, E2F_Q4, E2F_Q4_01, FREAC2_01, E2F4DP1_01, TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, TTTGTAG_MIR520D, GOBP_CELL_CYCLE_PHASE_TRANSITION, GCM_PPM1D, ATGCAGT_MIR217, CTATGCA_MIR153, GGGTGGRR_PAX4_03, GOBP_NEGATIVE_REGULATION_OF_GENE_EXPRESSION_EPIGENETIC, GOBP_DNA_METHYLATION_DEPENDENT_CONSTITUTIVE_HETEROCHROMATIN_FORMATION
GO Biological Process (12): G2/M transition of mitotic cell cycle (GO:0000086), DNA methylation-dependent constitutive heterochromatin formation (GO:0006346), protein dephosphorylation (GO:0006470), negative regulation of cell population proliferation (GO:0008285), cellular response to starvation (GO:0009267), response to radiation (GO:0009314), response to bacterium (GO:0009617), DNA damage response, signal transduction by p53 class mediator (GO:0030330), peptidyl-threonine dephosphorylation (GO:0035970), negative regulation of gene expression, epigenetic (GO:0045814), regulation of transcription initiation by RNA polymerase II (GO:0060260), regulation of intracellular signal transduction (GO:1902531)
GO Molecular Function (8): protein serine/threonine kinase activity (GO:0004674), protein serine/threonine phosphatase activity (GO:0004722), metal ion binding (GO:0046872), mitogen-activated protein kinase binding (GO:0051019), phosphoprotein phosphatase activity (GO:0004721), protein binding (GO:0005515), hydrolase activity (GO:0016787), cation binding (GO:0043169)
GO Cellular Component (5): nucleus (GO:0005634), nucleoplasm (GO:0005654), nucleolus (GO:0005730), cytosol (GO:0005829), cytoplasm (GO:0005737)
Reactome top-level categories
Rollup of top-1 pathways:
| Category | Pathways |
|---|---|
| Generic Transcription Pathway | 1 |
GO top-level categories
Rollup of top GO terms by namespace:
| Category | Terms |
|---|---|
| cellular anatomical structure | 3 |
| nuclear lumen | 2 |
| mitotic cell cycle | 1 |
| mitotic cell cycle phase transition | 1 |
| cell cycle G2/M phase transition | 1 |
| constitutive heterochromatin formation | 1 |
| dephosphorylation | 1 |
| protein modification process | 1 |
| cell population proliferation | 1 |
| regulation of cell population proliferation | 1 |
| negative regulation of cellular process | 1 |
| cellular response to nutrient levels | 1 |
| cellular response to stress | 1 |
| response to starvation | 1 |
| response to abiotic stimulus | 1 |
| response to other organism | 1 |
| signal transduction in response to DNA damage | 1 |
| signal transduction by p53 class mediator | 1 |
| protein dephosphorylation | 1 |
| negative regulation of gene expression | 1 |
| epigenetic regulation of gene expression | 1 |
| regulation of transcription by RNA polymerase II | 1 |
| transcription initiation at RNA polymerase II promoter | 1 |
| regulation of DNA-templated transcription initiation | 1 |
| regulation of signal transduction | 1 |
| intracellular signal transduction | 1 |
| protein kinase activity | 1 |
| phosphoprotein phosphatase activity | 1 |
| cation binding | 1 |
| protein kinase binding | 1 |
| phosphatase activity | 1 |
| catalytic activity, acting on a protein | 1 |
| binding | 1 |
| catalytic activity | 1 |
| ion binding | 1 |
| intracellular membrane-bounded organelle | 1 |
| intracellular membraneless organelle | 1 |
| cytoplasm | 1 |
| intracellular anatomical structure | 1 |
Protein interactions and networks
STRING
2407 interactions, top by confidence (×1000):
| Protein A | Protein B | Partner UniProt | Score |
|---|---|---|---|
| PPM1D | ATM | Q13315 | 924 |
| PPM1D | APPBP2 | Q92624 | 842 |
| PPM1D | CHEK2 | O96017 | 822 |
| PPM1D | MDM2 | Q00987 | 790 |
| PPM1D | CHEK1 | O14757 | 761 |
| PPM1D | MDM4 | O15151 | 728 |
| PPM1D | TP53 | P04637 | 721 |
| PPM1D | PTEN | P60484 | 601 |
| PPM1D | ASXL1 | Q8IXJ9 | 588 |
| PPM1D | TET2 | Q6N021 | 571 |
| PPM1D | CCNG1 | P51959 | 551 |
| PPM1D | RAD51C | O43502 | 549 |
| PPM1D | PPM1M | Q96MI6 | 527 |
| PPM1D | DNMT3A | Q9Y6K1 | 507 |
| PPM1D | WT1 | P19544 | 496 |
IntAct
56 interactions, top by confidence:
| A | B | Type | Score |
|---|---|---|---|
| PPM1D | RUNX2 | psi-mi:“MI:0915”(physical association) | 0.600 |
| PPM1D | RUNX2 | psi-mi:“MI:0203”(dephosphorylation reaction) | 0.600 |
| PPM1D | BRAF | psi-mi:“MI:0915”(physical association) | 0.550 |
| PPM1D | BRAF | psi-mi:“MI:2364”(proximity) | 0.550 |
| BRAF | PPM1D | psi-mi:“MI:0915”(physical association) | 0.550 |
| MDM2 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.540 |
| PPM1D | MDM2 | psi-mi:“MI:0915”(physical association) | 0.540 |
| PPM1D | MDM2 | psi-mi:“MI:0203”(dephosphorylation reaction) | 0.540 |
| PPM1D | H2AX | psi-mi:“MI:0203”(dephosphorylation reaction) | 0.540 |
| PPM1D | H2AX | psi-mi:“MI:0915”(physical association) | 0.540 |
| H2AX | PPM1D | psi-mi:“MI:0915”(physical association) | 0.540 |
| PPM1D | psi-mi:“MI:0203”(dephosphorylation reaction) | 0.440 | |
| PPP4C | PPM1D | psi-mi:“MI:0915”(physical association) | 0.400 |
| PPM1D | BEX2 | psi-mi:“MI:0915”(physical association) | 0.370 |
| CASZ1 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | DIRAS3 | psi-mi:“MI:0915”(physical association) | 0.370 |
| DKK3 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| EPSTI1 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | ERRFI1 | psi-mi:“MI:0915”(physical association) | 0.370 |
| GLCE | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| ITIH5 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| LYPD3 | PPM1D | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | MRC2 | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | NAT2 | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | OSGIN1 | psi-mi:“MI:0915”(physical association) | 0.370 |
| PPM1D | RHOBTB2 | psi-mi:“MI:0915”(physical association) | 0.370 |
BioGRID (89): KDM1A (Biochemical Activity), KDM1A (Affinity Capture-Western), PPM1D (Affinity Capture-Western), KDM1A (Reconstituted Complex), BEX2 (Two-hybrid), CASZ1 (Two-hybrid), DIRAS3 (Two-hybrid), DKK3 (Two-hybrid), EPSTI1 (Two-hybrid), ERRFI1 (Two-hybrid), GLCE (Two-hybrid), ITIH5 (Two-hybrid), LYPD3 (Two-hybrid), MRC2 (Two-hybrid), NAT2 (Two-hybrid)
ESM2 similar proteins: A3A8Q4, A3A8W6, A6QLI5, B0Y8Z0, B9F4I8, F4JFR7, F4JRP0, F4K5K6, F4KAV2, O15297, O81472, O82302, P48785, Q06003, Q0D598, Q0DZT4, Q10NB9, Q2PS26, Q4WWA0, Q5N712, Q5XUX6, Q651A1, Q6ITT4, Q6K1U0, Q6K1U4, Q6K5I0, Q6WLH4, Q6ZGY0, Q7L311, Q7TQI8, Q7XRV0, Q84T94, Q8GYY5, Q8L7S0, Q8RWN7, Q8W119, Q96JG8, Q9BE64, Q9ES73, Q9FNK5
Diamond homologs: A0A7U2MSD6, A0BLX0, A0BQL0, A0CUB5, A0DSB3, A0DTY1, A3A8W2, A3A8W6, A3CCP9, A5PJZ2, A6K136, B8NLZ3, G0RT93, O15297, O62829, O62830, O75688, O81716, P20650, P34221, P35182, P35813, P35814, P35815, P36982, P36993, P38089, P39966, P40371, P49443, P49444, P49596, P49597, P49598, P93006, Q09172, Q09173, Q0D629, Q0DBU3, Q0DZT4
SIGNOR signaling
41 interactions.
| A | Effect | B | Mechanism |
|---|---|---|---|
| PPM1D | down-regulates | CHEK1 | dephosphorylation |
| PPM1D | down-regulates | MAPK12 | dephosphorylation |
| PPM1D | down-regulates | TP53 | dephosphorylation |
| PPM1D | up-regulates | MDM2 | dephosphorylation |
| PPM1D | down-regulates | H2AX | dephosphorylation |
| PPM1D | down-regulates | ATM | dephosphorylation |
| PPM1D | “down-regulates activity” | MAPK14 | dephosphorylation |
| PPM1D | “down-regulates activity” | CHEK1 | dephosphorylation |
| PPM1D | “down-regulates activity” | TP53 | dephosphorylation |
| PPM1D | “down-regulates quantity by destabilization” | MDM2 | dephosphorylation |
| PPM1D | “down-regulates activity” | ATM | dephosphorylation |
| PPM1D | “down-regulates activity” | KDM1A | dephosphorylation |
| PPM1D | “down-regulates quantity by destabilization” | TP53 | dephosphorylation |
| PPM1D | “up-regulates quantity by stabilization” | MDM4 | dephosphorylation |
| PPM1D | “down-regulates activity” | BAX | dephosphorylation |
| PPM1D | “up-regulates activity” | RBM38 | dephosphorylation |
| PPM1D | “down-regulates activity” | TP53BP1 | dephosphorylation |
| PPM1D | “down-regulates activity” | CDKN1B | dephosphorylation |
| PPM1D | “up-regulates activity” | RUNX2 | dephosphorylation |
| PPM1D | “down-regulates activity” | GPI | dephosphorylation |
| PPM1D | “down-regulates activity” | UNG | dephosphorylation |
| HIPK2 | “down-regulates quantity by destabilization” | PPM1D | phosphorylation |
| PPM1D | “down-regulates activity” | RPS6KA3 | dephosphorylation |
Enriched among interaction partners
Reactome pathways and GO biological processes over-represented among this gene’s 36 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.
GO biological processes:
| GO term | Partners | Fold | FDR |
|---|---|---|---|
| epidermal growth factor receptor signaling pathway | 5 | 35.4× | 2e-04 |
Disease & clinical
Cancer significance
From intOGen — cancer-driver classification: loss-of-function (tumor-suppressor-like) across 5 cancer types — BCC, BRCA, HGGNOS, LUAD, PAST.
Clinical variants and AI predictions
ClinVar
392 variants total. Per-class counts are floors (≥ shown; pagination cap):
| Classification | Count (floor) |
|---|---|
| Pathogenic | 32 |
| Likely pathogenic | 33 |
| Uncertain significance | 148 |
| Likely benign | 111 |
| Benign | 26 |
Top pathogenic / likely-pathogenic (30)
| Variant ID | HGVS | Classification |
|---|---|---|
| 1031346 | NM_003620.4(PPM1D):c.1278dup (p.Trp427fs) | Pathogenic |
| 148363 | GRCh38/hg38 17q23.1-25.1(chr17:36449220-75053130)x3 | Pathogenic |
| 1700115 | NM_003620.4(PPM1D):c.1262dup (p.Leu422fs) | Pathogenic |
| 1704248 | NM_003620.4(PPM1D):c.1262C>A (p.Ser421Ter) | Pathogenic |
| 1704910 | NM_003620.4(PPM1D):c.1280G>A (p.Trp427Ter) | Pathogenic |
| 2442251 | NM_003620.4(PPM1D):c.1288del (p.Arg429_Val430insTer) | Pathogenic |
| 3024290 | NM_003620.4(PPM1D):c.1204_1208del (p.Asn402fs) | Pathogenic |
| 3067690 | NM_003620.4(PPM1D):c.1275del (p.Pro426fs) | Pathogenic |
| 3238648 | NM_003620.4(PPM1D):c.1216dup (p.Thr406fs) | Pathogenic |
| 3248542 | NM_003620.4(PPM1D):c.1305_1308dup (p.Pro437fs) | Pathogenic |
| 3254874 | NM_003620.4(PPM1D):c.1503_1507del (p.Ser503fs) | Pathogenic |
| 3336919 | NM_003620.4(PPM1D):c.1233_1234del (p.Ser412fs) | Pathogenic |
| 3350239 | NM_003620.4(PPM1D):c.1403C>A (p.Ser468Ter) | Pathogenic |
| 3600723 | NM_003620.4(PPM1D):c.1273del (p.Asp425fs) | Pathogenic |
| 392920 | NM_003620.4(PPM1D):c.1267G>T (p.Glu423Ter) | Pathogenic |
| 424876 | NM_003620.4(PPM1D):c.1216del (p.Thr406fs) | Pathogenic |
| 424878 | NM_003620.4(PPM1D):c.1281G>A (p.Trp427Ter) | Pathogenic |
| 424879 | NM_003620.4(PPM1D):c.1250dup (p.Pro418fs) | Pathogenic |
| 449085 | NM_003620.4(PPM1D):c.1210C>T (p.Gln404Ter) | Pathogenic |
| 4531673 | NM_003620.4(PPM1D):c.1280_1281insT (p.Trp427fs) | Pathogenic |
| 4688060 | NM_003620.4(PPM1D):c.1455del (p.Ile486fs) | Pathogenic |
| 488841 | NM_003620.4(PPM1D):c.1451T>G (p.Leu484Ter) | Pathogenic |
| 503784 | NM_003620.4(PPM1D):c.1212del (p.Glu405fs) | Pathogenic |
| 524006 | NM_003620.4(PPM1D):c.1246_1249dup (p.Pro417fs) | Pathogenic |
| 625529 | NM_003620.4(PPM1D):c.1248_1252del (p.Pro417fs) | Pathogenic |
| 638685 | NM_003620.4(PPM1D):c.1259dup (p.Ser421fs) | Pathogenic |
| 817626 | NM_003620.4(PPM1D):c.1535del (p.Asn512fs) | Pathogenic |
| 871467 | NM_003620.4(PPM1D):c.1270_1274dup (p.Asp425fs) | Pathogenic |
| 871468 | NM_003620.4(PPM1D):c.1275_1281del (p.Pro426fs) | Pathogenic |
| 982378 | NM_003620.4(PPM1D):c.1388_1389delinsA (p.Gly463fs) | Pathogenic |
SpliceAI
1295 predictions. Top by Δscore:
| Variant | Effect | Δscore |
|---|---|---|
| 17:60623516:TACA:T | acceptor_loss | 1.0000 |
| 17:60623517:ACAGC:A | acceptor_gain | 1.0000 |
| 17:60623518:CA:C | acceptor_loss | 1.0000 |
| 17:60623519:A:AG | acceptor_gain | 1.0000 |
| 17:60623519:AGC:A | acceptor_gain | 1.0000 |
| 17:60623519:AGCG:A | acceptor_gain | 1.0000 |
| 17:60623520:G:GT | acceptor_gain | 1.0000 |
| 17:60623520:GC:G | acceptor_gain | 1.0000 |
| 17:60623520:GCG:G | acceptor_gain | 1.0000 |
| 17:60623520:GCGG:G | acceptor_gain | 1.0000 |
| 17:60623520:GCGGA:G | acceptor_gain | 1.0000 |
| 17:60623719:A:T | donor_gain | 1.0000 |
| 17:60623737:G:GT | donor_gain | 1.0000 |
| 17:60623747:G:GT | donor_gain | 1.0000 |
| 17:60623747:G:T | donor_gain | 1.0000 |
| 17:60623748:AGGTA:A | donor_loss | 1.0000 |
| 17:60623750:G:GA | donor_loss | 1.0000 |
| 17:60623751:T:G | donor_loss | 1.0000 |
| 17:60633849:TTAGT:T | acceptor_loss | 1.0000 |
| 17:60633851:A:AG | acceptor_gain | 1.0000 |
| 17:60633851:AGT:A | acceptor_gain | 1.0000 |
| 17:60633852:G:GA | acceptor_gain | 1.0000 |
| 17:60633852:GT:G | acceptor_gain | 1.0000 |
| 17:60633852:GTG:G | acceptor_gain | 1.0000 |
| 17:60633852:GTGT:G | acceptor_gain | 1.0000 |
| 17:60633852:GTGTA:G | acceptor_gain | 1.0000 |
| 17:60633973:ACTTG:A | donor_gain | 1.0000 |
| 17:60633974:CTTG:C | donor_gain | 1.0000 |
| 17:60633974:CTTGG:C | donor_loss | 1.0000 |
| 17:60633975:TTG:T | donor_gain | 1.0000 |
AlphaMissense
3949 scored. Top likely-pathogenic:
| Variant | Protein change | am_pathogenicity |
|---|---|---|
| 17:60600460:G:C | G16R | 1.000 |
| 17:60600467:G:C | R18T | 1.000 |
| 17:60600467:G:T | R18M | 1.000 |
| 17:60600468:G:C | R18S | 1.000 |
| 17:60600468:G:T | R18S | 1.000 |
| 17:60600477:G:A | M21I | 1.000 |
| 17:60600477:G:C | M21I | 1.000 |
| 17:60600477:G:T | M21I | 1.000 |
| 17:60600481:G:C | D23H | 1.000 |
| 17:60600482:A:C | D23A | 1.000 |
| 17:60600482:A:G | D23G | 1.000 |
| 17:60600482:A:T | D23V | 1.000 |
| 17:60600727:G:C | D105H | 1.000 |
| 17:60600728:A:C | D105A | 1.000 |
| 17:60600728:A:G | D105G | 1.000 |
| 17:60600728:A:T | D105V | 1.000 |
| 17:60600729:C:A | D105E | 1.000 |
| 17:60600729:C:G | D105E | 1.000 |
| 17:60600730:G:A | G106R | 1.000 |
| 17:60600730:G:C | G106R | 1.000 |
| 17:60600730:G:T | G106W | 1.000 |
| 17:60600731:G:A | G106E | 1.000 |
| 17:60600731:G:C | G106A | 1.000 |
| 17:60600731:G:T | G106V | 1.000 |
| 17:60600733:C:G | H107D | 1.000 |
| 17:60600735:C:A | H107Q | 1.000 |
| 17:60600735:C:G | H107Q | 1.000 |
| 17:60600736:G:A | G108S | 1.000 |
| 17:60600736:G:C | G108R | 1.000 |
| 17:60600736:G:T | G108C | 1.000 |
dbSNP variants (sampled 300 via entrez): RS1000068951 (17:60644970 CAT>C), RS1000107362 (17:60632985 A>C), RS1000201530 (17:60616307 A>G), RS1000235917 (17:60639623 A>C), RS1000284408 (17:60644215 C>T), RS1000308482 (17:60610764 G>A,T), RS1000312626 (17:60650702 G>C), RS1000323954 (17:60650538 A>T), RS1000381333 (17:60604958 A>G), RS1000392422 (17:60599126 C>A), RS1000413924 (17:60604690 G>A), RS1000478466 (17:60643970 C>G,T), RS1000495810 (17:60645332 C>A), RS1000510185 (17:60628296 C>G,T), RS1000521574 (17:60632711 C>T)
Disease associations
OMIM: gene MIM:605100 | disease phenotypes: MIM:617450, MIM:114480, MIM:167000
GenCC curated gene-disease
| Disease | Classification | Inheritance |
|---|---|---|
| intellectual developmental disorder with gastrointestinal difficulties and high pain threshold | Definitive | Autosomal dominant |
| hereditary breast carcinoma | Disputed Evidence | Autosomal dominant |
ClinGen Gene-Disease Validity (1)
Expert-panel classifications — Definitive > Strong > Moderate > Limited > Disputed > Refuted.
| Disease | Classification | Inheritance |
|---|---|---|
| syndromic intellectual disability | Definitive | AD |
Mondo (6): intellectual developmental disorder with gastrointestinal difficulties and high pain threshold (MONDO:0044318), hereditary neoplastic syndrome (MONDO:0015356), hereditary breast carcinoma (MONDO:0016419), ovarian cancer (MONDO:0008170), autosomal dominant non-syndromic intellectual disability (MONDO:0015802), lung carcinoma (MONDO:0005138)
Orphanet (5): Jansen-de Vries syndrome (Orphanet:653767), Inherited cancer-predisposing syndrome (Orphanet:140162), Hereditary breast cancer (Orphanet:227535), Rare ovarian cancer (Orphanet:213500), Autosomal dominant non-syndromic intellectual disability (Orphanet:178469)
HPO phenotypes
37 total (30 of 37 shown, HPO-id order):
| HPO | Term |
|---|---|
| HP:0000006 | Autosomal dominant inheritance |
| HP:0000154 | Wide mouth |
| HP:0000219 | Thin upper lip vermilion |
| HP:0000337 | Broad forehead |
| HP:0000358 | Posteriorly rotated ears |
| HP:0000369 | Low-set ears |
| HP:0000463 | Anteverted nares |
| HP:0000486 | Strabismus |
| HP:0000540 | Hypermetropia |
| HP:0000722 | Compulsive behaviors |
| HP:0000729 | Autistic behavior |
| HP:0000739 | Anxiety |
| HP:0000750 | Delayed speech and language development |
| HP:0001156 | Brachydactyly |
| HP:0001249 | Intellectual disability |
| HP:0001252 | Hypotonia |
| HP:0001263 | Global developmental delay |
| HP:0001442 | Typified by somatic mosaicism |
| HP:0001601 | Laryngomalacia |
| HP:0001629 | Ventricular septal defect |
| HP:0001647 | Bicuspid aortic valve |
| HP:0001773 | Short foot |
| HP:0001792 | Small nail |
| HP:0002013 | Vomiting |
| HP:0002019 | Constipation |
| HP:0002020 | Gastroesophageal reflux |
| HP:0002136 | Broad-based gait |
| HP:0002697 | Parietal foramina |
| HP:0002719 | Recurrent infections |
| HP:0003002 | Breast carcinoma |
GWAS associations
1 associations (top):
| Study | Trait | p-value |
|---|---|---|
| GCST008062_38 | Blood urea nitrogen levels | 6.000000e-09 |
MeSH disease descriptors (3)
| Descriptor | Name | Tree numbers |
|---|---|---|
| D009386 | Neoplastic Syndromes, Hereditary | C04.700; C16.320.700 |
| D010051 | Ovarian Neoplasms | C04.588.322.455; C12.050.351.500.056.630.705; C12.050.351.937.418.685; C12.100.250.056.630.705; C12.900.418.685; C19.344.410; C19.391.630.705 |
| C562840 | Breast Cancer, Familial (supp.) |
Drugs & pharmacology
Drug and pharmacology data
Is drug target: yes
ChEMBL targets (1): CHEMBL1938224 (SINGLE PROTEIN)
PharmGKB: 1 entry (VIP=true, CPIC=false)
GtoPdb / IUPHAR curated pharmacology
(IUPHAR/BPS Guide to Pharmacology — expert-curated)
Target class: enzyme — Metal-dependent protein phosphatase (PPM) family
Most potent curated ligand interactions (2 total), top 2:
| Ligand | Action | Affinity | Parameter |
|---|---|---|---|
| GSK2830371 | Inhibition | 7.07 | pIC50 |
| SL-176 | Inhibition | 6.96 | pIC50 |
ChEMBL bioactivities
14 potent at pChembl≥5 of 33 total, top 12 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).
| pChembl | Type | Value | Unit | Molecule |
|---|---|---|---|---|
| 8.22 | IC50 | 6 | nM | CHEMBL3613749 |
| 7.89 | IC50 | 13 | nM | CHEMBL5418953 |
| 7.06 | IC50 | 86.9 | nM | CHEMBL1939361 |
| 7.06 | IC50 | 86.3 | nM | CHEMBL3613749 |
| 6.96 | IC50 | 110 | nM | CHEMBL3613748 |
| 6.82 | Ki | 150 | nM | CHEMBL3109288 |
| 6.67 | IC50 | 215 | nM | CHEMBL3613747 |
| 6.64 | Ki | 228 | nM | CHEMBL3613748 |
| 6.32 | IC50 | 480 | nM | CHEMBL1939361 |
| 5.42 | IC50 | 3800 | nM | CHEMBL5416471 |
| 5.14 | IC50 | 7300 | nM | CHEMBL5415785 |
| 5.14 | IC50 | 7200 | nM | CHEMBL5400889 |
PubChem BioAssay actives
8 with measured affinity, of 6100 total; 6 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.
| Compound | Assay | Type | Value | Unit |
|---|---|---|---|---|
| (1R,3R,4aS,4bR,6R,8R,8aS,10S,10aS)-10-[tert-butyl(dimethyl)silyl]oxy-1-(hydroxymethyl)-1,4a,6-trimethyl-8-triethylsilyloxy-2,3,4,4b,5,6,7,8,8a,9,10,10a-dodecahydrophenanthren-3-ol | 1245781: Inhibition of His-tagged PPM1D (1 to 420 residues) (unknown origin) expressed in Escherichia coli BL21 (DE3) pLysS cells using Ac-VEPPLS(P)QETFSDLW-NH2 substrate | ic50 | 0.0869 | uM |
| (1R,3S,4aS,5R,8aR)-3-[tert-butyl(dimethyl)silyl]oxy-1-methyl-5-triethylsilyloxy-3,4,4a,5,6,7,8,8a-octahydro-2H-naphthalene-1-carboxylic acid | 1245781: Inhibition of His-tagged PPM1D (1 to 420 residues) (unknown origin) expressed in Escherichia coli BL21 (DE3) pLysS cells using Ac-VEPPLS(P)QETFSDLW-NH2 substrate | ic50 | 0.1100 | uM |
| [(1R,3S,4aS,5R,8aR)-3-[tert-butyl(dimethyl)silyl]oxy-1-methyl-5-triethylsilyloxy-3,4,4a,5,6,7,8,8a-octahydro-2H-naphthalen-1-yl]methanol | 1245781: Inhibition of His-tagged PPM1D (1 to 420 residues) (unknown origin) expressed in Escherichia coli BL21 (DE3) pLysS cells using Ac-VEPPLS(P)QETFSDLW-NH2 substrate | ic50 | 0.2150 | uM |
| [3-[[4-[[3-[(3-chlorophenyl)carbamoyl]phenyl]methylamino]-3-(cyclohexylmethyl)benzoyl]amino]phenyl] dihydrogen phosphate | 1986727: Inhibition of recombinant human Wip1 (1 to 420 residues) using human ATM phosphopeptide (AFEEG-pS-QSTTIGY) as substrate incubated for 7 mins by Bio-mol green assay | ic50 | 3.8000 | uM |
| [3-[[4-[[3-[(3-chloroanilino)methyl]benzoyl]amino]-3-(cyclohexylmethyl)benzoyl]amino]phenyl] dihydrogen phosphate | 1986727: Inhibition of recombinant human Wip1 (1 to 420 residues) using human ATM phosphopeptide (AFEEG-pS-QSTTIGY) as substrate incubated for 7 mins by Bio-mol green assay | ic50 | 7.2000 | uM |
| [3-[[4-[[3-[(3-chlorophenyl)carbamoyl]benzoyl]amino]-3-(cyclohexylmethyl)benzoyl]amino]phenyl] dihydrogen phosphate | 1986727: Inhibition of recombinant human Wip1 (1 to 420 residues) using human ATM phosphopeptide (AFEEG-pS-QSTTIGY) as substrate incubated for 7 mins by Bio-mol green assay | ic50 | 7.3000 | uM |
CTD chemical–gene interactions
103 total (human), top 30 by PubMed support.
| Chemical | Actions (top 5) | PubMed papers |
|---|---|---|
| Benzo(a)pyrene | affects expression, affects cotreatment, increases expression | 7 |
| Aflatoxin B1 | affects expression, increases expression, affects reaction | 5 |
| Cisplatin | increases expression | 4 |
| bisphenol A | decreases expression, affects cotreatment, increases expression | 3 |
| Fluorouracil | increases expression, affects reaction, increases reaction | 3 |
| Methyl Methanesulfonate | increases expression | 3 |
| 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide | increases expression | 3 |
| sodium arsenite | decreases expression, increases expression | 2 |
| mercuric bromide | increases expression, affects cotreatment | 2 |
| Arsenic Trioxide | affects activity, decreases expression, affects reaction, increases activity, increases phosphorylation (+1 more) | 2 |
| Acetaminophen | increases expression | 2 |
| Formaldehyde | increases expression, decreases expression | 2 |
| Phenylmercuric Acetate | affects cotreatment, increases expression | 2 |
| Quercetin | increases expression | 2 |
| Valproic Acid | increases expression | 2 |
| Cadmium Chloride | decreases expression, increases expression | 2 |
| p-Chloromercuribenzoic Acid | affects cotreatment, increases expression | 2 |
| 3-((6-(2-methoxyphenyl)pyrimidin-4-yl)amino)phenyl)methane sulfonamide | decreases expression | 1 |
| FR900359 | affects phosphorylation | 1 |
| bisphenol F | affects cotreatment, increases expression | 1 |
| chloroacetaldehyde | affects expression | 1 |
| naringenin | affects cotreatment, increases expression | 1 |
| triphenyl phosphate | affects expression | 1 |
| benzo(b)fluoranthene | increases expression, affects cotreatment | 1 |
| deoxynivalenol | increases expression | 1 |
| VX-agent | increases expression | 1 |
| tris(2-butoxyethyl) phosphate | affects expression | 1 |
| afimoxifene | decreases expression | 1 |
| cobaltous chloride | increases expression | 1 |
| butyraldehyde | increases expression | 1 |
ChEMBL screening assays
22 unique, capped per target: 22 binding
Representative assays (with source publication via chembl_document):
| Assay ID | Type | Description | Source paper |
|---|---|---|---|
| CHEMBL1941223 | Binding | Inhibition of N-terminal histidine-tagged PPM1Dc at 4 uM after 10 mins by BIOMOL GREEN assay | A small molecule inhibitor of p53-inducible protein phosphatase PPM1D. — Bioorg Med Chem Lett |
Cellosaurus cell lines
2,444 cell lines: 2,442 cancer cell line, 2 telomerase immortalized cell line
First 10 cell lines (id-ordered, not curated):
| Cellosaurus | Name | Category | Sex |
|---|---|---|---|
| CVCL_0042 | U2OS | Cancer cell line | Female |
| CVCL_0291 | HCT 116 | Cancer cell line | Male |
| CVCL_1Q94 | H414 | Cancer cell line | Male |
| CVCL_1Q95 | H414-LIG4(+/-) | Cancer cell line | Male |
| CVCL_1Q96 | H414-MDC1(+/-) | Cancer cell line | Male |
| CVCL_1Q97 | H414-MDC1(-/-) | Cancer cell line | Male |
| CVCL_1Q98 | H414-RAD18(+/-) | Cancer cell line | Male |
| CVCL_1Q99 | H414-RAD18(-/-) | Cancer cell line | Male |
| CVCL_1R00 | HCT116-53BPI(+/-) | Cancer cell line | Male |
| CVCL_1R01 | HCT116-DNAPKcs(+/-) | Cancer cell line | Male |
Clinical trials (associated diseases)
300 trials via MONDO — disease-level, not drug-specific.
| Trial | Phase | Status | Title |
|---|---|---|---|
| NCT00190697 | PHASE4 | COMPLETED | A Study of LY353381 (Arzoxifene) for Patients Who Benefitted From This Drug in Other Oncology Trials and Wished to Continue Treatment |
| NCT00277160 | PHASE4 | COMPLETED | A Study of Primary Prophylaxis With Neulasta (Pegfilgrastim) Versus Secondary Prophylaxis After Chemotherapy in Elderly Subjects (>/= 65 Years Old) With Cancer |
| NCT00727961 | PHASE4 | COMPLETED | A Study to Evaluate Efficacy and Tolerance of Caelyx in Patients With Epithelial Ovarian Cancer. (Study P04072)(COMPLETED) |
| NCT00740116 | PHASE4 | COMPLETED | Tranexamic Acid in Surgery of Advanced Ovarian Cancer |
| NCT00817479 | PHASE4 | COMPLETED | Tumor Gene Expression in Women With Ovarian Cancer |
| NCT01432015 | PHASE4 | COMPLETED | Fosaprepitant Versus Aprepitant in the Prevention of Chemotherapy Induced Nausea and Vomiting |
| NCT01706120 | PHASE4 | UNKNOWN | Study of Clinical and Biological Prognostic Factors in Patients With Ovarian Cancer Receiving Carboplatin +Paclitaxel With Bevacizumab |
| NCT01932125 | PHASE4 | COMPLETED | An Interventional Study of Avastin (Bevacizumab) in Patients With Advanced/Metastatic Epithelial Ovarian Cancer, Fallopian Tube Cancer or Primary Peritoneal Cancer |
| NCT01953107 | PHASE4 | COMPLETED | Oral Iron vs. Placebo in Newly Diagnosed Gynecologic Oncology Patients Who Are Surgical Candidates. |
| NCT02035345 | PHASE4 | TERMINATED | Slowed Carboplatin Infusion for Ovarian Cancer Patients Receiving Carboplatin Re-Treatment |
| NCT02243059 | PHASE4 | WITHDRAWN | Magnetic Resonance Imaging for Lymph Node Staging in Ovarian Cancer |
| NCT03164980 | PHASE4 | TERMINATED | QoL-Comparison Between Trabectedin/PLD and Pt-based Therapy in Patients With Pt-sensitive Recurrent Ovarian Cancer |
| NCT03384511 | PHASE4 | COMPLETED | The Use of 18F-ALF-NOTA-PRGD2 PET/CT Scan to Predict the Efficacy and Adverse Events of Apatinib in Malignancies. |
| NCT03543462 | PHASE4 | COMPLETED | Diaphragmatic Resection And Gynecological Ovarian Neoplasm |
| NCT03752216 | PHASE4 | COMPLETED | NIraparib and Quality of LifE is a Longitudinal Study Evaluating in Real Life the Tolerability of Niraparib. |
| NCT03858166 | PHASE4 | TERMINATED | Efficacy and Safety of PEG-rhG-CSF Secondary Prophylaxis vs. Therapeutic Administration in Patients With Ovarian Cancer |
| NCT04024254 | PHASE4 | COMPLETED | A Study of Serum Folate Levels in Patients Treated With Olaparib |
| NCT04330040 | PHASE4 | COMPLETED | Prospective Multicentre Phase-IV Clinical Trial of Olaparib in Indian Patients With Ovarian and Metastatic Breast Cancer |
| NCT04352439 | PHASE4 | COMPLETED | Aspirin for Prevention of Venous Thromboembolism Among Ovarian Cancer Patients Receiving Neoadjuvant Chemotherapy |
| NCT05187208 | PHASE4 | UNKNOWN | PARP Inhibitor Oral Maintenance in Low-Risk Ovarian Cancer |
| NCT05606692 | PHASE4 | RECRUITING | Influences of Propofol and Sevoflurane Anesthesia in Ovarian Cancer (Anesthetics) |
| NCT05926336 | PHASE4 | RECRUITING | The Effects of Using Different Anesthetics on the Prognosis of Primary Tumors and Its Mechanism of Action |
| NCT06412120 | PHASE4 | RECRUITING | Study Evaluating Safety, Tolerability, and Metabolism of Niraparib |
| NCT06871787 | PHASE4 | NOT_YET_RECRUITING | Near-Infrared Fluorescence Imaging With Indocyanine Green to Evaluate Bowel Anastomoses in Gynecologic Oncology Surgery |
| NCT06887933 | PHASE4 | NOT_YET_RECRUITING | A Trial to Evaluate the Safety of Niraparib Tablets in Adult Female Participants With Advanced or Relapsed Epithelial Ovarian Cancer |
| NCT07469202 | PHASE4 | NOT_YET_RECRUITING | CYTALUX Dose Extension Study |
| NCT00001806 | PHASE3 | COMPLETED | Methods in Education for Breast Cancer Genetics |
| NCT00002477 | PHASE3 | UNKNOWN | Adjuvant Chemotherapy Compared With Observation in Treating Patients With Resected Early Stage Ovarian Epithelial Cancer |
| NCT00002568 | PHASE3 | COMPLETED | Combination Chemotherapy With or Without Surgery in Treating Patients With Stage III Ovarian Epithelial Cancer |
| NCT00002641 | PHASE3 | COMPLETED | Surgery With or Without Chemotherapy in Treating Patients With Soft Tissue Sarcoma |
| NCT00002717 | PHASE3 | COMPLETED | Paclitaxel and Cisplatin in Treating Patients With Stage III or Stage IV Ovarian Cancer or Primary Peritoneal Cancer |
| NCT00002764 | PHASE3 | COMPLETED | Surgery With or Without Combination Chemotherapy in Treating Patients With Lung Metastases From Soft Tissue Sarcoma |
| NCT00002819 | PHASE3 | TERMINATED | Chemotherapy With or Without Peripheral Stem Cell Transplantation in Treating Patients With Persistent Ovarian Epithelial Cancer |
| NCT00002894 | PHASE3 | COMPLETED | Platinum-based Chemotherapy With or Without Paclitaxel in Treating Patients With Relapsed Ovarian Cancer |
| NCT00002895 | PHASE3 | COMPLETED | Early Chemotherapy Based on CA 125 Level Alone Compared With Delayed Chemotherapy in Treating Patients With Recurrent Ovarian Epithelial , Fallopian Tube, or Primary Peritoneal Cancer |
| NCT00003120 | PHASE3 | COMPLETED | S9701 Paclitaxel in Treating Patients With Advanced Ovarian, Fallopian Tube, or Primary Peritoneal Cancer in Remission |
| NCT00003214 | PHASE3 | COMPLETED | Chemosensitivity Testing to Assign Treatment for Patients With Stage III or Stage IV Ovarian Cancer |
| NCT00003322 | PHASE3 | COMPLETED | Combination Chemotherapy in Treating Patients With Primary Peritoneal or Stage III Epithelial Ovarian Cancer |
| NCT00003636 | PHASE3 | COMPLETED | Chemotherapy Plus Surgery in Treating Patients With Stage III or Stage IV Ovarian, Peritoneal, or Fallopian Tube Cancer |
| NCT00003644 | PHASE3 | COMPLETED | Carboplatin Plus Paclitaxel With or Without Continued Low-Dose Paclitaxel in Treating Patients With Early-Stage Ovarian Cancer |
Related Atlas pages
- Associated diseases: hereditary breast carcinoma, intellectual developmental disorder with gastrointestinal difficulties and high pain threshold, syndromic intellectual disability
- Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): autosomal dominant non-syndromic intellectual disability, hereditary breast carcinoma, intellectual developmental disorder with gastrointestinal difficulties and high pain threshold