PLPP5

gene
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Also known as HTPAPDPPL1

Summary

PLPP5 (phospholipid phosphatase 5, HGNC:25026) is a protein-coding gene on chromosome 8p11.23, encoding Phospholipid phosphatase 5 (Q8NEB5). Magnesium-independent phospholipid phosphatase with broad substrate specificity.

Enables diacylglycerol diphosphate phosphatase activity and phosphatidate phosphatase activity. Involved in phospholipid dephosphorylation. Predicted to be located in cytoplasm and plasma membrane. Predicted to be active in membrane.

Source: NCBI Gene 84513 — RefSeq curated summary.

At a glance

  • GWAS associations: 2
  • Clinical variants (ClinVar): 1 total
  • MANE Select transcript: NM_001102559

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:25026
Approved symbolPLPP5
Namephospholipid phosphatase 5
Location8p11.23
Locus typegene with protein product
StatusApproved
AliasesHTPAP, DPPL1
Ensembl geneENSG00000147535
Ensembl biotypeprotein_coding
OMIM610626
Entrez84513

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 8 protein_coding, 4 protein_coding_CDS_not_defined, 3 retained_intron, 1 nonsense_mediated_decay

ENST00000419686, ENST00000422581, ENST00000424479, ENST00000524409, ENST00000524616, ENST00000527758, ENST00000527793, ENST00000528814, ENST00000529359, ENST00000530193, ENST00000530432, ENST00000531109, ENST00000531483, ENST00000531823, ENST00000534339, ENST00000935602

RefSeq mRNA: 10 — MANE Select: NM_001102559 NM_001102559, NM_001102560, NM_001354452, NM_001354454, NM_001354456, NM_001354457, NM_001354458, NM_001354459, NM_001410920, NM_032483

CCDS: CCDS47841, CCDS47842, CCDS47843, CCDS87598, CCDS94281

Canonical transcript exons

ENST00000424479 — 7 exons

ExonStartEnd
ENSE000016396643826888238268990
ENSE000016486223826313038264604
ENSE000023048733826912638269224
ENSE000034705913826614138266311
ENSE000034864563826837138268461
ENSE000036205583826726738267391
ENSE000036274863826789738267960

Expression profiles

Bgee: expression breadth ubiquitous, 232 present calls, max score 98.95.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 18.0682 / max 254.9153, expressed in 1753 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter IDTPM avgSamples expressed
9273715.97561753
927362.09251067

Top tissues by expression

250 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
body of pancreasUBERON:000115098.95gold quality
right uterine tubeUBERON:000130298.39gold quality
adenohypophysisUBERON:000219698.33gold quality
pituitary glandUBERON:000000797.73gold quality
pancreasUBERON:000126497.59gold quality
islet of LangerhansUBERON:000000696.64gold quality
rectumUBERON:000105296.43gold quality
olfactory segment of nasal mucosaUBERON:000538695.99gold quality
body of stomachUBERON:000116195.93gold quality
prostate glandUBERON:000236795.87gold quality
gall bladderUBERON:000211095.70gold quality
endocervixUBERON:000045895.62gold quality
bone marrow cellCL:000209295.60gold quality
right coronary arteryUBERON:000162595.59gold quality
stromal cell of endometriumCL:000225595.36gold quality
cortical plateUBERON:000534395.27gold quality
ganglionic eminenceUBERON:000402395.15gold quality
minor salivary glandUBERON:000183095.03gold quality
stomachUBERON:000094595.00gold quality
vermiform appendixUBERON:000115495.00gold quality
right lobe of thyroid glandUBERON:000111994.90gold quality
left lobe of thyroid glandUBERON:000112094.88gold quality
saliva-secreting glandUBERON:000104494.76gold quality
small intestine Peyer’s patchUBERON:000345494.64gold quality
metanephros cortexUBERON:001053394.36gold quality
epithelial cell of pancreasCL:000008394.27gold quality
ascending aortaUBERON:000149694.22gold quality
spleenUBERON:000210694.18gold quality
left coronary arteryUBERON:000162694.16gold quality
mucosa of transverse colonUBERON:000499194.10gold quality

Single-cell (SCXA)

Detected in 11 experiment(s), a significant marker in 10.

ExperimentMarker?Max mean expression
E-HCAD-4yes106.77
E-CURD-88yes99.81
E-CURD-122yes67.35
E-MTAB-9467yes53.02
E-CURD-46yes46.93
E-MTAB-8410yes40.40
E-HCAD-1yes36.97
E-ANND-3yes32.35
E-HCAD-11yes25.30
E-MTAB-10553yes13.14
E-GEOD-124858no130.83

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

7 targeting PLPP5, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-144-3P99.9473.982698
HSA-MIR-137-3P99.8774.742401
HSA-MIR-4799-5P99.8270.602663
HSA-MIR-5197-3P98.7167.051905
HSA-MIR-16-1-3P98.7069.231538
HSA-MIR-6750-3P96.7967.50740
HSA-MIR-75996.1666.77873

Literature-anchored findings (GeneRIF, showing 7)

  • HTPAP is a novel metastatic suppressor gene for hepatocellular carcinoma (PMID:16261160)
  • DPPL1 and DPPL2 represent a novel type of mammalian phosphatidate phosphatase. (PMID:17590538)
  • microarray experiments on PPAPDC1B knockdown indicated this gene interfered with cell signaling pathways, including Janus-activated kinase-signal transducer and activator of transcription, mitogen-activated protein kinase, and protein kinase C pathways (PMID:18757432)
  • HTPAP-1 may be the transcript of HTPAP to exhibit a suppressive role on hepatocellular cancer(HCC) metastasis, and can be a prognostic marker for HCC. (PMID:21219541)
  • Findings identify an HTPAP genotype and associated gene expression pattern that favors metastasis progression and that could be used to predict tumor metastasis and prognosis in HCC patients. (PMID:21531764)
  • PPAPDC1B and WHSC1L1 played a major role in regulating the survival of breast cancer, pancreatic adenocarcinoma and small-cell lung cancer-derived cell lines. (PMID:24051013)
  • genetic variants at loci -1053 and +64 of the HTPAP promoter affect the expression of HTPAP, which might be a novel determinant and target for HCC prognosis (PMID:24603412)

Cross-species orthologs

11 orthologs

OrganismSymbolGene ID
danio_rerioplpp5ENSDARG00000057672
mus_musculusPlpp5ENSMUSG00000031570
rattus_norvegicusPlpp5ENSRNOG00000069017
drosophila_melanogasterwunFBGN0016078
drosophila_melanogasterlazaFBGN0037163
drosophila_melanogasterCG11438FBGN0037164
drosophila_melanogasterCG11437FBGN0037165
drosophila_melanogasterCG11426FBGN0037166
drosophila_melanogasterCG11425FBGN0037167
drosophila_melanogasterCG12746FBGN0037341
drosophila_melanogasterwun2FBGN0041087

Paralogs (9): PLPP1 (ENSG00000067113), PLPPR2 (ENSG00000105520), PLPPR5 (ENSG00000117598), PLPPR4 (ENSG00000117600), PLPPR3 (ENSG00000129951), PLPP2 (ENSG00000141934), PLPPR1 (ENSG00000148123), PLPP3 (ENSG00000162407), PLPP4 (ENSG00000203805)

Protein

Protein identifiers

Phospholipid phosphatase 5Q8NEB5 (reviewed: Q8NEB5)

Alternative names: Phosphatidic acid phosphatase type 2 domain-containing protein 1B

All UniProt accessions (6): Q8NEB5, A0A140VK38, E9PNB1, H0YCK0, H0YCQ3, H0YDY2

UniProt curated annotations — full annotation on UniProt →

Function. Magnesium-independent phospholipid phosphatase with broad substrate specificity. Preferentially catalyzes the conversion of diacylglycerol pyrophosphate into phosphatidate but can also act on phosphatidate and lysophosphatidate. Phospholipid phosphatases are involved in both the synthesis of lipids and the generation or degradation of lipid-signaling molecules.

Subcellular location. Cell membrane.

Tissue specificity. Ubiquitous.

Activity regulation. Magnesium-independent phospholipid phosphatase. Inhibited by N-ethylmaleimide.

Pathway. Lipid metabolism; phospholipid metabolism.

Miscellaneous. May be a metastatic suppressor for hepatocellular carcinoma.

Similarity. Belongs to the PA-phosphatase related phosphoesterase family.

Isoforms (4)

UniProt IDNamesCanonical?
Q8NEB5-11yes
Q8NEB5-22
Q8NEB5-33
Q8NEB5-44

RefSeq proteins (10): NP_001096029, NP_001096030, NP_001341381, NP_001341383, NP_001341385, NP_001341386, NP_001341387, NP_001341388, NP_001397849, NP_115872 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000326PAP2/HPODomain
IPR036938PAP2/HPO_sfHomologous_superfamily
IPR043216PAP-likeFamily

Pfam: PF01569

Enzyme classification (BRENDA):

  • EC 3.1.3.4 — phosphatidate phosphatase (BRENDA: 31 organisms, 190 substrates, 196 inhibitors, 44 Km, 3 kcat entries)
  • EC 3.1.3.81 — diacylglycerol diphosphate phosphatase (BRENDA: 0 organisms, 0 substrates, 0 inhibitors, 0 Km, 0 kcat entries)

Substrate kinetics (BRENDA)

10 substrates with measured Km, best-characterized 10. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
PHOSPHATIDIC ACID0.0054–1.217
LYSOPHOSPHATIDATE0.046–0.1793
PHOSPHATIDATE0.284–0.3693
SPHINGOSINE-1-PHOSPHATE0.028–0.263
CERAMIDE-1-PHOSPHATE0.022–0.0522
DIACYLGLYCEROL DIPHOSPHATE0.041–0.1042
LYSOPHOSPHATIDIC ACID0.295–0.582
1,2-DIACYL-SN-GLYCEROL-3-PHOSPHATE0.59541
2-(4,4-DIFLUORO-5,7-DIMETHYL-4-BORA-3A,4A-DIAZA-0.0241
DIOCTANOYL PHOSPHATIDIC ACID1.41

Catalyzed reactions (Rhea), 5 shown:

  • a 1,2-diacyl-sn-glycero-3-phosphate + H2O = a 1,2-diacyl-sn-glycerol + phosphate (RHEA:27429)
  • a 1,2-diacyl-sn-glycerol 3-diphosphate + H2O = a 1,2-diacyl-sn-glycero-3-phosphate + phosphate + H(+) (RHEA:27449)
  • 1-(9Z-octadecenoyl)-sn-glycero-3-phosphate + H2O = 1-(9Z-octadecenoyl)-sn-glycerol + phosphate (RHEA:39835)
  • 1,2-dioctanoyl-sn-glycero-3-diphosphate + H2O = 1,2-dioctanoyl-sn-glycero-3-phosphate + phosphate + H(+) (RHEA:42856)
  • 1,2-dioctanoyl-sn-glycero-3-phosphate + H2O = 1,2-dioctanoyl-sn-glycerol + phosphate (RHEA:42860)

UniProt features (28 total): topological domain 7, transmembrane region 6, splice variant 5, region of interest 3, mutagenesis site 3, active site 2, chain 1, site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q8NEB5-F191.840.83

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Catalytic / active sites (3): 152 (proton donors); 208 (nucleophile); 212 (stabilizes the active site histidine for nucleophilic attack)

Mutagenesis-validated functional residues (3):

PositionPhenotype
115loss of phosphatase activity; when associated with a-152 and with a-208.
152loss of phosphatase activity; when associated with a-115 and with a-208.
208loss of phosphatase activity; when associated with a-115 and with a-152.

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-2029485Role of phospholipids in phagocytosis

MSigDB gene sets: 142 (showing top): GSE18804_SPLEEN_MACROPHAGE_VS_BRAIN_TUMORAL_MACROPHAGE_DN, GOBP_LIPID_MODIFICATION, GOBP_PHOSPHOLIPID_METABOLIC_PROCESS, REACTOME_INNATE_IMMUNE_SYSTEM, ZHAN_MULTIPLE_MYELOMA_PR_DN, GOBP_PHOSPHOLIPID_DEPHOSPHORYLATION, GOBP_ORGANOPHOSPHATE_METABOLIC_PROCESS, CEBPB_01, CEBP_Q2, CREIGHTON_ENDOCRINE_THERAPY_RESISTANCE_5, GOBP_LIPID_METABOLIC_PROCESS, GOBP_DEPHOSPHORYLATION, CCCNNGGGAR_OLF1_01, WGGAATGY_TEF1_Q6, MASSARWEH_TAMOXIFEN_RESISTANCE_UP

GO Biological Process (3): phospholipid metabolic process (GO:0006644), phospholipid dephosphorylation (GO:0046839), lipid metabolic process (GO:0006629)

GO Molecular Function (4): diacylglycerol diphosphate phosphatase activity (GO:0000810), phosphatidate phosphatase activity (GO:0008195), protein binding (GO:0005515), hydrolase activity (GO:0016787)

GO Cellular Component (3): cytoplasm (GO:0005737), plasma membrane (GO:0005886), membrane (GO:0016020)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Fcgamma receptor (FCGR) dependent phagocytosis1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure2
lipid metabolic process1
organophosphate metabolic process1
dephosphorylation1
lipid modification1
primary metabolic process1
pyrophosphatase activity1
lipid phosphatase activity1
binding1
catalytic activity1
intracellular anatomical structure1
membrane1
cell periphery1

Protein interactions and networks

STRING

850 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
PLPP5DDHD2O94830621
PLPP5LSM1O15116590
PLPP5NSD3Q9BZ95583
PLPP5ZNF703Q9H7S9573
PLPP5BAG4O95429571
PLPP5TM2D2Q9BX73570
PLPP5ERLIN2O94905544
PLPP5PLPP6Q8IY26538
PLPP5PLPP7Q8NBV4515
PLPP5PLPBPO94903514
PLPP5RAB11FIP1Q6WKZ4480
PLPP5LETM2Q2VYF4478
PLPP5PLPP1O14494447
PLPP5ADAM32Q8TC27447
PLPP5LPIN1Q14693442

IntAct

8 interactions, top by confidence:

ABTypeScore
CTXN3PLPP5psi-mi:“MI:0915”(physical association)0.560
PLPP5psi-mi:“MI:0915”(physical association)0.560
PLPP5psi-mi:“MI:0915”(physical association)0.000
glpAPLPP5psi-mi:“MI:0915”(physical association)0.000

BioGRID (4): PPAPDC1B (Synthetic Lethality), SLC29A2 (Two-hybrid), CTXN3 (Two-hybrid), PPAPDC1B (Affinity Capture-RNA)

ESM2 similar proteins: A4IFN5, A6NDV4, B1AWJ5, B1AZA5, B2LYG4, P59266, Q05B45, Q0VCJ8, Q3KRC4, Q3UMZ3, Q5EA70, Q5H8A4, Q5QJU3, Q5RBJ7, Q5U3C3, Q5VTY9, Q5ZMH6, Q6PHN7, Q6TCH4, Q6W5G4, Q6ZVK1, Q7Z7J7, Q865K8, Q86WK9, Q8BHH9, Q8BMT9, Q8BWB6, Q8C1E7, Q8K3J9, Q8N6M3, Q8NBT3, Q8NEB5, Q8NFT2, Q8VCW4, Q8VCY8, Q8VD53, Q8VDI9, Q96GM1, Q9BSA9, Q9BXJ8

Diamond homologs: O08564, O14494, O14495, O43688, O88956, P60588, P97544, Q04396, Q0VBU9, Q0WNG6, Q10022, Q2HJ61, Q3SZE3, Q3UMZ3, Q5VZY2, Q61469, Q6GQ62, Q6IQH6, Q86AF0, Q8K593, Q8LFD1, Q8NEB5, Q99JY8, Q9DAX2, Q9V576, Q9XI60, B0CM95, B0KWE9, B1MTH4, Q86YN1, Q9ZU49, Q29RT8, Q54PR7, Q6GM05, Q6WAY2, Q7Z2D5, Q8BFZ2, Q8TBJ4, B2KI79, Q32ZL2

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

1 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance1
Likely benign0
Benign0

Top pathogenic / likely-pathogenic (0)

SpliceAI

1643 predictions. Top by Δscore:

VariantEffectΔscore
8:38267265:A:ACdonor_gain1.0000
8:38267266:C:CCdonor_gain1.0000
8:38267314:T:TAdonor_gain1.0000
8:38268439:A:Tacceptor_gain1.0000
8:38268880:A:ACdonor_gain1.0000
8:38268881:C:CCdonor_gain1.0000
8:38268881:CAAA:Cdonor_gain1.0000
8:38268908:C:CAdonor_gain1.0000
8:38269124:A:ACdonor_gain1.0000
8:38269125:C:CCdonor_gain1.0000
8:38266307:TGCAA:Tacceptor_gain0.9900
8:38266309:CAA:Cacceptor_gain0.9900
8:38266312:C:CCacceptor_gain0.9900
8:38267319:ATCC:Adonor_gain0.9900
8:38267891:ACTT:Adonor_loss0.9900
8:38267892:CTTA:Cdonor_loss0.9900
8:38267893:TTACC:Tdonor_loss0.9900
8:38267894:T:TGdonor_loss0.9900
8:38268440:G:Cacceptor_gain0.9900
8:38268440:G:GCacceptor_gain0.9900
8:38268871:T:Adonor_gain0.9900
8:38268905:A:ACdonor_gain0.9900
8:38268906:C:CCdonor_gain0.9900
8:38268989:CC:Cacceptor_gain0.9900
8:38268990:CC:Cacceptor_gain0.9900
8:38269123:TACAG:Tdonor_loss0.9900
8:38269124:ACAG:Adonor_loss0.9900
8:38269125:CA:Cdonor_gain0.9900
8:38267199:CTAG:Cdonor_gain0.9800
8:38267392:C:CCacceptor_gain0.9800

AlphaMissense

1720 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
8:38267953:G:CS94R0.999
8:38267953:G:TS94R0.999
8:38267955:T:GS94R0.999
8:38266141:C:GD212H0.997
8:38267289:G:CS147R0.996
8:38267289:G:TS147R0.996
8:38267291:T:GS147R0.996
8:38264604:T:AD212V0.995
8:38267286:G:CF148L0.995
8:38267286:G:TF148L0.995
8:38267288:A:GF148L0.995
8:38267329:C:GC134S0.995
8:38267330:A:TC134S0.995
8:38267901:C:AG112W0.995
8:38264580:C:TG220E0.994
8:38267280:A:CS150R0.994
8:38267280:A:TS150R0.994
8:38267282:T:GS150R0.994
8:38267292:C:AK146N0.994
8:38267292:C:GK146N0.994
8:38267296:C:GR145P0.994
8:38267361:G:CF123L0.994
8:38267361:G:TF123L0.994
8:38267363:A:GF123L0.994
8:38267365:C:GC122S0.994
8:38267366:A:TC122S0.994
8:38267368:C:GR121P0.994
8:38264604:T:GD212A0.993
8:38267900:C:TG112E0.993
8:38267911:T:AK108N0.993

dbSNP variants (sampled 300 via entrez): RS1000058844 (8:38270782 A>G), RS1000366334 (8:38270423 A>C), RS1000431558 (8:38270684 A>C,T), RS1000864322 (8:38264224 T>A,C,G), RS1000895238 (8:38264430 G>A,C,T), RS1001466543 (8:38269314 A>C,G,T), RS1001535321 (8:38267464 A>G), RS1001702332 (8:38265171 C>T), RS1001867440 (8:38265616 C>T), RS1001900268 (8:38265876 T>A,G), RS1002520255 (8:38268915 C>T), RS1003377775 (8:38266834 A>G), RS1004443495 (8:38269042 T>C), RS1004647101 (8:38266765 CAAAA>C,CA,CAAAAA), RS1004884739 (8:38270205 C>G)

Disease associations

OMIM: gene MIM:610626 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

2 associations (top):

StudyTraitp-value
GCST004521_242Autism spectrum disorder or schizophrenia4.000000e-09
GCST006803_65Schizophrenia6.000000e-10

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

47 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Valproic Acidaffects cotreatment, decreases expression, affects expression7
sodium arsenitedecreases expression, affects cotreatment, increases abundance, increases expression4
Cyclosporineincreases expression4
trichostatin Aaffects cotreatment, decreases expression3
Estradioldecreases expression, increases expression2
Tunicamycinincreases expression2
Thapsigarginincreases expression2
triphenyl phosphateaffects expression1
bisphenol Aaffects expression1
deoxynivalenoldecreases expression1
decabromobiphenyl etheraffects expression1
arseniteincreases methylation1
manganese chlorideaffects cotreatment, increases abundance, increases expression1
cupric chlorideincreases expression1
di-n-butylphosphoric acidaffects expression1
perfluorooctane sulfonic acidincreases expression1
CGP 52608affects binding, increases reaction1
entinostatdecreases expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, decreases expression1
belinostatdecreases expression1
2,2’,4,4’-tetrabromodiphenyl etherincreases expression1
dorsomorphinaffects cotreatment, decreases expression1
(4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)increases expression1
jinfukangaffects cotreatment, increases expression1
NSC 689534affects binding, increases expression1
NSC668394increases expression1
Sunitinibincreases expression1
Vorinostatdecreases expression1
Air Pollutantsincreases abundance, increases expression1
Arsenicincreases expression, affects cotreatment, increases abundance1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.