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Aliases for PPEF1 Gene

Aliases for PPEF1 Gene

  • Protein Phosphatase With EF-Hand Domain 1 2 3 5
  • Protein Phosphatase 7, Catalytic Subunit, Alpha Isozyme 2 3
  • Protein Phosphatase, EF-Hand Calcium Binding Domain 1 2 3
  • Protein Phosphatase With EF Calcium-Binding Domain 3 4
  • EC 4 61
  • PPP7C 3 4
  • PPEF 3 4
  • PP7 3 4
  • Protein Phosphatase, Serine/Threonine Type, With EF-Hands 3
  • Serine/Threonine-Protein Phosphatase With EF-Hands 1 3
  • Serine/Threonine Protein Phosphatase 7 3
  • Serine/Threonine-Protein Phosphatase 7 4
  • PPP7CA 3
  • PPEF-1 4

External Ids for PPEF1 Gene

Previous HGNC Symbols for PPEF1 Gene

  • PPEF

Previous GeneCards Identifiers for PPEF1 Gene

  • GC0XP018253
  • GC0XP017375
  • GC0XP017911
  • GC0XP018070
  • GC0XP018468
  • GC0XP018618
  • GC0XP016462

Summaries for PPEF1 Gene

Entrez Gene Summary for PPEF1 Gene

  • This gene encodes a member of the serine/threonine protein phosphatase with EF-hand motif family. The protein contains a protein phosphatase catalytic domain, and at least two EF-hand calcium-binding motifs in its C terminus. Although its substrate(s) is unknown, the encoded protein has been suggested to play a role in specific sensory neuron function and/or development. This gene shares high sequence similarity with the Drosophila retinal degeneration C (rdgC) gene. Several alternatively spliced transcript variants, each encoding a distinct isoform, have been described. [provided by RefSeq, Jul 2008]

GeneCards Summary for PPEF1 Gene

PPEF1 (Protein Phosphatase With EF-Hand Domain 1) is a Protein Coding gene. Diseases associated with PPEF1 include Retinal Degeneration and Pineal Parenchymal Tumor Of Intermediate Differentiation. Among its related pathways are Metabolism of fat-soluble vitamins and Signaling by GPCR. GO annotations related to this gene include calcium ion binding and iron ion binding. An important paralog of this gene is PPEF2.

UniProtKB/Swiss-Prot for PPEF1 Gene

  • May have a role in the recovery or adaptation response of photoreceptors. May have a role in development.

Gene Wiki entry for PPEF1 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for PPEF1 Gene

Genomics for PPEF1 Gene

Regulatory Elements for PPEF1 Gene

Enhancers for PPEF1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH0XF018686 0.2 Ensembl 5.2 +11.1 11092 0.4 ZBTB7A PPEF1 PPEF1-AS1
GH0XF018688 0.2 Ensembl 5.2 +12.5 12492 0.8 PPEF1 PPEF1-AS1
GH0XF018677 0.2 Ensembl 0.8 +1.6 1592 0.2 BCOR HDAC1 KLF1 ESRRA TAL1 ETV1 GATA2 NCOR1 TRIM24 HES1 PPEF1 PPEF1-AS1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around PPEF1 on UCSC Golden Path with GeneCards custom track

Promoters for PPEF1 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000070836 -909 1601 BRCA1 ZNF121 GTF3C2 ELK1 ZNF143 FOS DEK SP3 ETV4 MXD3

Genomic Location for PPEF1 Gene

18,675,909 bp from pter
18,827,921 bp from pter
152,013 bases
Plus strand

Genomic View for PPEF1 Gene

Genes around PPEF1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
PPEF1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for PPEF1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for PPEF1 Gene

Proteins for PPEF1 Gene

  • Protein details for PPEF1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Serine/threonine-protein phosphatase with EF-hands 1
    Protein Accession:
    Secondary Accessions:
    • A6NHP4
    • A8K348
    • O15253
    • Q9NU21
    • Q9UJH0

    Protein attributes for PPEF1 Gene

    653 amino acids
    Molecular mass:
    75792 Da
    Name=Mg(2+); Xref=ChEBI:CHEBI:18420;
    Name=Mn(2+); Xref=ChEBI:CHEBI:29035;
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for PPEF1 Gene


neXtProt entry for PPEF1 Gene

Selected DME Specific Peptides for PPEF1 Gene


Post-translational modifications for PPEF1 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Domains & Families for PPEF1 Gene

Suggested Antigen Peptide Sequences for PPEF1 Gene

Graphical View of Domain Structure for InterPro Entry



  • Contains 3 EF-hand domains.
  • Belongs to the PPP phosphatase family.
  • Contains 3 EF-hand domains.
  • Contains 1 IQ domain.
  • Belongs to the PPP phosphatase family.
genes like me logo Genes that share domains with PPEF1: view

Function for PPEF1 Gene

Molecular function for PPEF1 Gene

GENATLAS Biochemistry:
serine-threonine phosphatase with two alternatively spliced forms,expressed in sensory neurons of neural crest origin,homologous to Drosophila retinal degeneration C (rdgc)
UniProtKB/Swiss-Prot BiophysicochemicalProperties:
pH dependence: Optimum pH is 8.0.;
UniProtKB/Swiss-Prot CatalyticActivity:
[a protein]-serine/threonine phosphate + H(2)O = [a protein]-serine/threonine + phosphate.
UniProtKB/Swiss-Prot EnzymeRegulation:
Activated by calcium.
UniProtKB/Swiss-Prot Function:
May have a role in the recovery or adaptation response of photoreceptors. May have a role in development.

Enzyme Numbers (IUBMB) for PPEF1 Gene

Gene Ontology (GO) - Molecular Function for PPEF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004722 protein serine/threonine phosphatase activity TAS --
GO:0005506 iron ion binding IEA --
GO:0005509 calcium ion binding IEA --
GO:0005515 protein binding IPI 12051765
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with PPEF1: view
genes like me logo Genes that share phenotypes with PPEF1: view

Animal Models for PPEF1 Gene

MGI Knock Outs for PPEF1:

Animal Model Products

Flow Cytometry Products

No data available for Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for PPEF1 Gene

Localization for PPEF1 Gene

Subcellular locations from

Jensen Localization Image for PPEF1 Gene COMPARTMENTS Subcellular localization image for PPEF1 gene
Compartment Confidence
cytosol 5
mitochondrion 3
nucleus 1

Gene Ontology (GO) - Cellular Components for PPEF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with PPEF1: view

No data available for Subcellular locations from UniProtKB/Swiss-Prot for PPEF1 Gene

Pathways & Interactions for PPEF1 Gene

genes like me logo Genes that share pathways with PPEF1: view

Gene Ontology (GO) - Biological Process for PPEF1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006470 protein dephosphorylation TAS 9215685
GO:0022400 regulation of rhodopsin mediated signaling pathway TAS --
GO:0050906 detection of stimulus involved in sensory perception IEA --
genes like me logo Genes that share ontologies with PPEF1: view

No data available for SIGNOR curated interactions for PPEF1 Gene

Drugs & Compounds for PPEF1 Gene

(7) Drugs for PPEF1 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Phosphoric acid Approved Pharma 0
Water Approved Pharma 0
Manganese Approved Nutra 34
calcium Nutra 0
Magnesium Nutra 0

(2) Additional Compounds for PPEF1 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
  • Armco iron
  • Carbonyl iron
  • FE
  • Ferrovac e
  • Hematite
  • NFB Orthophosphate
  • O-Phosphoric acid
  • Ortho-phosphate
  • Orthophosphate (PO43-)
  • Orthophosphate(3-)
genes like me logo Genes that share compounds with PPEF1: view

Transcripts for PPEF1 Gene

Unigene Clusters for PPEF1 Gene

Protein phosphatase, EF-hand calcium binding domain 1:
Representative Sequences:

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for PPEF1 Gene

No ASD Table

Relevant External Links for PPEF1 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for PPEF1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for PPEF1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for PPEF1 Gene

This gene is overexpressed in Testis (x14.4), Brain - Spinal cord (cervical c-1) (x7.6), Brain - Anterior cingulate cortex (BA24) (x5.8), Brain - Cortex (x4.8), and Brain - Frontal Cortex (BA9) (x4.5).

Protein differential expression in normal tissues from HIPED for PPEF1 Gene

This gene is overexpressed in Spinal cord (60.4) and Testis (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for PPEF1 Gene

Protein tissue co-expression partners for PPEF1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of PPEF1 Gene:


SOURCE GeneReport for Unigene cluster for PPEF1 Gene:


mRNA Expression by UniProt/SwissProt for PPEF1 Gene:

Tissue specificity: Detected in retina and retinal derived Y-79 retinoblastoma cells. Also found in fetal brain.
genes like me logo Genes that share expression patterns with PPEF1: view

Primer Products

Orthologs for PPEF1 Gene

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

Orthologs for PPEF1 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia PPEF1 34 35
  • 93.73 (n)
(Canis familiaris)
Mammalia PPEF1 34 35
  • 85.94 (n)
(Bos Taurus)
Mammalia PPEF1 34 35
  • 83.59 (n)
(Rattus norvegicus)
Mammalia Ppef1 34
  • 81.45 (n)
(Mus musculus)
Mammalia Ppef1 34 16 35
  • 80.52 (n)
(Monodelphis domestica)
Mammalia PPEF1 35
  • 57 (a)
(Ornithorhynchus anatinus)
Mammalia PPEF1 35
  • 43 (a)
(Gallus gallus)
Aves PPEF1 34 35
  • 62.74 (n)
(Anolis carolinensis)
Reptilia PPEF1 35
  • 52 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia ppef1 34
  • 62.14 (n)
(Danio rerio)
Actinopterygii ppef1 34 35
  • 58.83 (n)
fruit fly
(Drosophila melanogaster)
Insecta rdgC 36 35
  • 39 (a)
(Caenorhabditis elegans)
Secernentea pef-1 34 35
  • 52.57 (n)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes PPT1 35
  • 20 (a)
Species where no ortholog for PPEF1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • 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 squirt (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 PPEF1 Gene

Gene Tree for PPEF1 (if available)
Gene Tree for PPEF1 (if available)

Paralogs for PPEF1 Gene

Paralogs for PPEF1 Gene

(4) SIMAP similar genes for PPEF1 Gene using alignment to 6 proteins:

genes like me logo Genes that share paralogs with PPEF1: view

Variants for PPEF1 Gene

Sequence variations from dbSNP and Humsavar for PPEF1 Gene

SNP ID Clin Chr 0X pos Sequence Context AA Info Type
rs10126105 -- 18,690,301(+) GGCAT(C/T)TGAGG intron-variant, upstream-variant-2KB
rs10126707 -- 18,689,958(+) ATTCA(A/G)CCTTC intron-variant, upstream-variant-2KB
rs10126712 -- 18,689,970(+) ACTGT(C/G)AGGTC intron-variant, upstream-variant-2KB
rs10127296 -- 18,692,724(+) TGCAG(C/T)TTGAA intron-variant, upstream-variant-2KB
rs10156935 -- 18,776,876(+) gatcg(C/T)gccat intron-variant

Structural Variations from Database of Genomic Variants (DGV) for PPEF1 Gene

Variant ID Type Subtype PubMed ID
esv2752317 CNV gain 17911159
esv33517 CNV loss 17666407
esv3576793 CNV gain 25503493

Variation tolerance for PPEF1 Gene

Residual Variation Intolerance Score: 21.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.81; 34.13% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PPEF1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for PPEF1 Gene

Disorders for PPEF1 Gene

MalaCards: The human disease database

(2) MalaCards diseases for PPEF1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
retinal degeneration
  • degeneration of retina
pineal parenchymal tumor of intermediate differentiation
  • pineal parenchymal tumour of intermediate differentiation
- elite association - COSMIC cancer census association via MalaCards
Search PPEF1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for PPEF1

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with PPEF1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for PPEF1 Gene

Publications for PPEF1 Gene

  1. A novel human serine-threonine phosphatase related to the Drosophila retinal degeneration C (rdgC) gene is selectively expressed in sensory neurons of neural crest origin. (PMID: 9215685) Montini E. … Franco B. (Hum. Mol. Genet. 1997) 2 3 4 22 64
  2. Identification and characterization of a conserved family of protein serine/threonine phosphatases homologous to Drosophila retinal degeneration C. (PMID: 9326663) Sherman P.M. … Nathans J. (Proc. Natl. Acad. Sci. U.S.A. 1997) 2 3 4 64
  3. The DNA sequence of the human X chromosome. (PMID: 15772651) Ross M.T. … Bentley D.R. (Nature 2005) 3 4 64
  4. An unappreciated role for RNA surveillance. (PMID: 14759258) Hillman R.T. … Brenner S.E. (Genome Biol. 2004) 3 4 64
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4 64

Products for PPEF1 Gene

Sources for PPEF1 Gene

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