The protein encoded by this gene belongs to the lipid phosphate phosphatase (LPP) family. LPPs catalyze the dephosphorylation of a number of bioactive lipid mediators that regulate a variety of cell functions. This protein is specifically expressed in neurons. It is located in the membranes of outgrowing axons and has been shown to be important for axonal outgrowth during devel... See more...

Aliases for PLPPR4 Gene

Aliases for PLPPR4 Gene

  • Phospholipid Phosphatase Related 4 2 3 5
  • LPPR4 2 3 4
  • PRG-1 2 3 4
  • PHP1 2 3 4
  • Brain-Specific Phosphatidic Acid Phosphatase-Like Protein 1 3 4
  • Lipid Phosphate Phosphatase-Related Protein Type 4 3 4
  • Phospholipid Phosphatase-Related Protein Type 4 3 4
  • 2-Lysophosphatidate Phosphatase PLPPR4 3 4
  • Plasticity-Related Gene 1 Protein 3 4
  • KIAA0455 2 4
  • PRG1 3 4
  • Plasticity Related Gene-1 2
  • Plasticity Related Gene 1 3
  • EC 3.1.3.106 4
  • EC 3.1.3.4 50
  • PLPPR4 5
  • LPR4 3

External Ids for PLPPR4 Gene

Summaries for PLPPR4 Gene

Entrez Gene Summary for PLPPR4 Gene

  • The protein encoded by this gene belongs to the lipid phosphate phosphatase (LPP) family. LPPs catalyze the dephosphorylation of a number of bioactive lipid mediators that regulate a variety of cell functions. This protein is specifically expressed in neurons. It is located in the membranes of outgrowing axons and has been shown to be important for axonal outgrowth during development and regenerative sprouting. Alternatively spliced transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Oct 2009]

GeneCards Summary for PLPPR4 Gene

PLPPR4 (Phospholipid Phosphatase Related 4) is a Protein Coding gene. Diseases associated with PLPPR4 include Dihydropyrimidine Dehydrogenase Deficiency and 46,Xy Sex Reversal 8. Among its related pathways are Signaling by GPCR and Lysosphingolipid and LPA receptors. An important paralog of this gene is PLPPR3.

UniProtKB/Swiss-Prot Summary for PLPPR4 Gene

  • Hydrolyzes lysophosphatidic acid (LPA) and participates to the axonal outgrowth during development by attenuating phospholipid-induced axon collapse in neuron.

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for PLPPR4 Gene

Genomics for PLPPR4 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for PLPPR4 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J099264 Promoter/Enhancer 1.3 Ensembl ENCODE CraniofacialAtlas 250.7 +1.8 1767 1.8 EZH2 ATF2 POLR2A ZNF341 GABPB1 TAF1 ZNF48 RAD21 REST ZNF202 PLPPR4 SASS6 TRMT13 lnc-PLPPR5-2 PALMD
GH01J099456 Enhancer 0.7 Ensembl ENCODE 10.4 +194.6 194624 2.4 JUND CEBPB GATA3 TCF7L2 FOXA1 GATA2 POLR2A EGR2 FOS EP300 PLPPR4 LOC107985421 LOC107985093 PALMD LINC01708
GH01J099441 Enhancer 0.5 FANTOM5 Ensembl 15.6 +178.9 178945 1.8 JUND PLPPR4 PALMD LOC107985093 LOC107985421 LINC01708
GH01J099327 Enhancer 0.6 Ensembl ENCODE 11.3 +64.8 64845 2.4 CTCF RFX1 SP1 RAD21 PLPPR4 HSALNG0005469 lnc-PLPPR5-2 PALMD
GH01J099331 Enhancer 0.5 Ensembl 10.7 +68.5 68545 0.2 ZNF316 NFE2 MAFG MAFK EMSY PLPPR4 HSALNG0005469 lnc-PLPPR5-2 PALMD
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around PLPPR4 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for PLPPR4

Genomic Locations for PLPPR4 Gene

Latest Assembly
chr1:99,262,956-99,309,590
(GRCh38/hg38)
Size:
46,635 bases
Orientation:
Plus strand

Previous Assembly
chr1:99,729,848-99,775,140
(GRCh37/hg19 by Entrez Gene)
Size:
45,293 bases
Orientation:
Plus strand

chr1:99,729,509-99,775,146
(GRCh37/hg19 by Ensembl)
Size:
45,638 bases
Orientation:
Plus strand

Genomic View for PLPPR4 Gene

Genes around PLPPR4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PLPPR4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PLPPR4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PLPPR4 Gene

Proteins for PLPPR4 Gene

  • Protein details for PLPPR4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q7Z2D5-PLPR4_HUMAN
    Recommended name:
    2-lysophosphatidate phosphatase PLPPR4
    Protein Accession:
    Q7Z2D5
    Secondary Accessions:
    • E7EPS1
    • O75043
    • Q5T9R9
    • Q86XQ5
    • Q8N3F1
    • Q96MP0

    Protein attributes for PLPPR4 Gene

    Size:
    763 amino acids
    Molecular mass:
    82983 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAA32300.3; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=EAW72991.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for PLPPR4 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PLPPR4 Gene

Selected DME Specific Peptides for PLPPR4 Gene

Q7Z2D5:
  • PRSPMGKE
  • LVHIPEE
  • DRSLSMPY
  • FLTVCKP
  • MVTFSNTLPR

Post-translational modifications for PLPPR4 Gene

  • Glycosylation at Asn214, Asn219, Asn268, Asn362, Asn432, Asn455, Asn513, Asn543, and Asn568
  • Modification sites at PhosphoSitePlus

Other Protein References for PLPPR4 Gene

Antibodies for research

  • Boster Bio Antibodies for PLPPR4

Domains & Families for PLPPR4 Gene

Gene Families for PLPPR4 Gene

HGNC:
Human Protein Atlas (HPA):
  • Enzymes
  • Predicted membrane proteins

Protein Domains for PLPPR4 Gene

InterPro:
Blocks:
  • PA-phosphatase related phosphoesterase

Suggested Antigen Peptide Sequences for PLPPR4 Gene

GenScript: Design optimal peptide antigens:
  • Plasticity-related gene 1 protein (LPPR4_HUMAN)
  • LPPR4 protein (Q3ZCT6_HUMAN)
  • LPPR4 protein (Q86XM6_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q7Z2D5

UniProtKB/Swiss-Prot:

PLPR4_HUMAN :
  • Belongs to the PA-phosphatase related phosphoesterase family.
Family:
  • Belongs to the PA-phosphatase related phosphoesterase family.
genes like me logo Genes that share domains with PLPPR4: view

Function for PLPPR4 Gene

Molecular function for PLPPR4 Gene

UniProtKB/Swiss-Prot Function:
Hydrolyzes lysophosphatidic acid (LPA) and participates to the axonal outgrowth during development by attenuating phospholipid-induced axon collapse in neuron.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=a 1-acyl-sn-glycero-3-phosphate + H2O = a 1-acyl-sn-glycerol + phosphate; Xref=Rhea:RHEA:33155, ChEBI:CHEBI:15377, ChEBI:CHEBI:43474, ChEBI:CHEBI:57970, ChEBI:CHEBI:64683; EC=3.1.3.106; Evidence={ECO:0000250|UniProtKB:Q7TMB7};.
UniProtKB/Swiss-Prot CatalyticActivity:
Reaction=1-(9Z-octadecenoyl)-sn-glycero-3-phosphate + H2O = 1-(9Z-octadecenoyl)-sn-glycerol + phosphate; Xref=Rhea:RHEA:39835, ChEBI:CHEBI:15377, ChEBI:CHEBI:43474, ChEBI:CHEBI:74544, ChEBI:CHEBI:75757; Evidence={ECO:0000250|UniProtKB:Q7TMB7};.

Enzyme Numbers (IUBMB) for PLPPR4 Gene

Phenotypes From GWAS Catalog for PLPPR4 Gene

Gene Ontology (GO) - Molecular Function for PLPPR4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0008195 phosphatidate phosphatase activity IBA 21873635
GO:0016787 hydrolase activity IEA --
GO:0042577 lipid phosphatase activity IBA 21873635
genes like me logo Genes that share ontologies with PLPPR4: view
genes like me logo Genes that share phenotypes with PLPPR4: view

Animal Models for PLPPR4 Gene

MGI Knock Outs for PLPPR4:

miRNA for PLPPR4 Gene

miRTarBase miRNAs that target PLPPR4

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLPPR4

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PLPPR4 Gene

Localization for PLPPR4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for PLPPR4 Gene

Membrane. Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for PLPPR4 gene
Compartment Confidence
plasma membrane 4
nucleus 2
extracellular 1
cytoskeleton 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for PLPPR4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IBA 21873635
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
GO:0098978 glutamatergic synapse IEA --
genes like me logo Genes that share ontologies with PLPPR4: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for PLPPR4 Gene

Pathways & Interactions for PLPPR4 Gene

genes like me logo Genes that share pathways with PLPPR4: view

Pathways by source for PLPPR4 Gene

Gene Ontology (GO) - Biological Process for PLPPR4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006644 phospholipid metabolic process IBA 21873635
GO:0007165 signal transduction IBA 21873635
GO:0007409 axonogenesis IBA 21873635
GO:0046839 phospholipid dephosphorylation IBA 21873635
GO:0048839 inner ear development IEA --
genes like me logo Genes that share ontologies with PLPPR4: view

No data available for SIGNOR curated interactions for PLPPR4 Gene

Drugs & Compounds for PLPPR4 Gene

(2) Drugs for PLPPR4 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Water Approved Pharma 0
Phosphate Experimental Pharma 0

(22) Additional Compounds for PLPPR4 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
LysoPA(0:0/16:0)
  • 2-Palmitoyl-glycero-3-phosphate
  • LPA(0:0/16:0)
  • Lysophosphatidic acid(0:0/16:0)
  • LPA(16:0)
  • 2-Hexadecanoyl-phosphatidic acid
LysoPA(0:0/18:0)
  • LPA(0:0/18:0)
  • LPA(18:0)
  • Lysophosphatidic acid(0:0/18:0)
  • Lysophosphatidic acid(18:0)
  • 2-Stearoyl-glycero-3-phosphate
LysoPA(0:0/18:1(9Z))
  • Lysophosphatidic acid(18:1)
  • LPA(0:0/18:1(9Z))
  • LPA(0:0/18:1)
  • Lysophosphatidic acid(0:0/18:1)
  • 2-Oleoyl-glycero-3-phosphate
LysoPA(0:0/18:2(9Z,12Z))
  • {3-hydroxy-2-[(9Z,12Z)-octadeca-9,12-dienoyloxy]propoxy}phosphonate
  • LPA(18:2)
  • LPA(0:0/18:2(9Z,12Z))
  • 2-(9Z,12Z-Octadecadienoyl)-phosphatidic acid
  • Lysophosphatidic acid(18:2)
LysoPA(16:0/0:0)
  • 1-Hexadecanoyl-sn-glycero-3-phosphate
  • 1-Hexadecanoyl-sn-glycero-3-phosphoric acid
  • 1-Palmitoylglycerol 3-phosphoric acid
  • 1-Palmitoyl-sn-glycerol 3-phosphate
  • PLPA
genes like me logo Genes that share compounds with PLPPR4: view

Transcripts for PLPPR4 Gene

mRNA/cDNA for PLPPR4 Gene

2 REFSEQ mRNAs :
9 NCBI additional mRNA sequence :
3 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for PLPPR4

Alternative Splicing Database (ASD) splice patterns (SP) for PLPPR4 Gene

No ASD Table

Relevant External Links for PLPPR4 Gene

GeneLoc Exon Structure for
PLPPR4

Expression for PLPPR4 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for PLPPR4

mRNA Expression by UniProt/SwissProt for PLPPR4 Gene:

Q7Z2D5-PLPR4_HUMAN
Tissue specificity: Specifically expressed in neurons.

Evidence on tissue expression from TISSUES for PLPPR4 Gene

  • Nervous system(4.9)
genes like me logo Genes that share expression patterns with PLPPR4: view

Primer products for research

No data available for mRNA expression in normal human tissues , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for PLPPR4 Gene

Orthologs for PLPPR4 Gene

This gene was present in the common ancestor of animals.

Orthologs for PLPPR4 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia -- 30
  • 100 (a)
OneToOne
LOC469389 29
  • 99.65 (n)
Dog
(Canis familiaris)
Mammalia -- 30
  • 97 (a)
OneToOne
LOC490146 29
  • 92.96 (n)
Cow
(Bos Taurus)
Mammalia -- 30
  • 97 (a)
OneToOne
LOC513388 29
  • 91.79 (n)
Oppossum
(Monodelphis domestica)
Mammalia -- 30
  • 93 (a)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 30
  • 93 (a)
OneToOne
Mouse
(Mus musculus)
Mammalia D3Bwg0562e 29 30
  • 88.47 (n)
OneToOne
Plppr4 16
Rat
(Rattus norvegicus)
Mammalia Lppr4 29
  • 87.68 (n)
Chicken
(Gallus gallus)
Aves -- 30
  • 89 (a)
OneToOne
LPPR4 29
  • 80.32 (n)
Lizard
(Anolis carolinensis)
Reptilia -- 30
  • 87 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100489346 29
  • 75.05 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.34211 29
Zebrafish
(Danio rerio)
Actinopterygii lppr4b 30
  • 71 (a)
OneToMany
lppr4a 29 30
  • 67.85 (n)
OneToMany
Worm
(Caenorhabditis elegans)
Secernentea T06D8.3 30
  • 24 (a)
OneToMany
Species where no ortholog for PLPPR4 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • 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)
  • Fruit Fly (Drosophila melanogaster)
  • 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 Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • 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 PLPPR4 Gene

ENSEMBL:
Gene Tree for PLPPR4 (if available)
TreeFam:
Gene Tree for PLPPR4 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for PLPPR4: view image
Alliance of Genome Resources:
Additional Orthologs for PLPPR4

Paralogs for PLPPR4 Gene

genes like me logo Genes that share paralogs with PLPPR4: view

Variants for PLPPR4 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for PLPPR4 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
rs148143169 Benign: not provided 99,288,102(+) T/A
NM_014839.4(PLPPR4):c.360T>A (p.Ile120=)
SYNONYMOUS
rs748367665 Uncertain Significance: not provided 99,301,777(+) G/C
NM_001166252.1(PLPPR4):c.792+811G>C
MISSENSE_VARIANT,INTRON
rs35285687 -- p.Ala32Val
rs712896 -- p.Gln2Lys

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for PLPPR4 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for PLPPR4 Gene

Variant ID Type Subtype PubMed ID
nsv506950 OTHER sequence alteration 20534489

Variation tolerance for PLPPR4 Gene

Residual Variation Intolerance Score: 7.95% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.60; 45.10% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for PLPPR4 Gene

Human Gene Mutation Database (HGMD)
PLPPR4
SNPedia medical, phenotypic, and genealogical associations of SNPs for
PLPPR4
Leiden Open Variation Database (LOVD)
PLPPR4

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PLPPR4 Gene

Disorders for PLPPR4 Gene

MalaCards: The human disease database

(2) MalaCards diseases for PLPPR4 Gene - From: COP

Disorder Aliases PubMed IDs
dihydropyrimidine dehydrogenase deficiency
  • dpd deficiency
46,xy sex reversal 8
  • srxy8
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for PLPPR4

genes like me logo Genes that share disorders with PLPPR4: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PLPPR4 Gene

Publications for PLPPR4 Gene

  1. A new phospholipid phosphatase, PRG-1, is involved in axon growth and regenerative sprouting. (PMID: 12730698) Bräuer AU … Nitsch R (Nature neuroscience 2003) 2 3 4
  2. Characterization of cDNA clones in size-fractionated cDNA libraries from human brain. (PMID: 9455484) Seki N … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1997) 3 4
  3. Molecular cause and functional impact of altered synaptic lipid signaling due to a prg-1 gene SNP. (PMID: 26671989) Vogt J … Nitsch R (EMBO molecular medicine 2016) 3
  4. Association between liver-specific gene polymorphisms and their expression levels with nonalcoholic fatty liver disease. (PMID: 23213074) Adams LA … Pennell CE (Hepatology (Baltimore, Md.) 2013) 3
  5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. (PMID: 21873635) Gaudet P … Thomas PD (Briefings in bioinformatics 2011) 3

Products for PLPPR4 Gene

Sources for PLPPR4 Gene