Human Gene PGP (ENST00000333503.8_7) from GENCODE V47lift37
  Description: phosphoglycolate phosphatase (from RefSeq NM_001042371.3)
Gencode Transcript: ENST00000333503.8_7
Gencode Gene: ENSG00000184207.9_10
Transcript (Including UTRs)
   Position: hg19 chr16:2,261,594-2,264,841 Size: 3,248 Total Exon Count: 2 Strand: -
Coding Region
   Position: hg19 chr16:2,263,729-2,264,778 Size: 1,050 Coding Exon Count: 2 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:2,261,594-2,264,841)mRNA (may differ from genome)Protein (321 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PGP_HUMAN
DESCRIPTION: RecName: Full=Phosphoglycolate phosphatase; Short=PGP; Short=PGPase; EC=3.1.3.18;
CATALYTIC ACTIVITY: 2-phosphoglycolate + H(2)O = glycolate + phosphate.
TISSUE SPECIFICITY: Detected in all tissues including red cells, lymphocytes and cultured fibroblasts (at protein level). The highest activities occur in skeletal muscle and cardiac muscle.
SIMILARITY: Belongs to the HAD-like hydrolase superfamily. CbbY/CbbZ/Gph/YieH family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 81.60 RPKM in Testis
Total median expression: 421.18 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -42.2063-0.670 Picture PostScript Text
3' UTR -890.602135-0.417 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR023214 - HAD-like_dom
IPR006357 - HAD-SF_hydro_IIA
IPR023215 - NPhePase-like_dom
IPR006349 - PGP_euk

Pfam Domains:
PF00702 - haloacid dehalogenase-like hydrolase
PF13242 - HAD-hyrolase-like
PF13344 - Haloacid dehalogenase-like hydrolase

SCOP Domains:
56784 - HAD-like
53756 - UDP-Glycosyltransferase/glycogen phosphorylase

ModBase Predicted Comparative 3D Structure on A6NDG6
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000121 glycerol-1-phosphatase activity
GO:0000287 magnesium ion binding
GO:0004721 phosphoprotein phosphatase activity
GO:0004725 protein tyrosine phosphatase activity
GO:0008967 phosphoglycolate phosphatase activity
GO:0016787 hydrolase activity
GO:0016791 phosphatase activity
GO:0043136 glycerol-3-phosphatase activity
GO:0046872 metal ion binding
GO:0098519 nucleotide phosphatase activity, acting on free nucleotides

Biological Process:
GO:0005975 carbohydrate metabolic process
GO:0006114 glycerol biosynthetic process
GO:0006650 glycerophospholipid metabolic process
GO:0008152 metabolic process
GO:0016311 dephosphorylation
GO:0035335 peptidyl-tyrosine dephosphorylation
GO:0045721 negative regulation of gluconeogenesis

Cellular Component:
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  JD488559 - Sequence 469583 from Patent EP1572962.
JD542521 - Sequence 523545 from Patent EP1572962.
JD409681 - Sequence 390705 from Patent EP1572962.
JD497644 - Sequence 478668 from Patent EP1572962.
AK026146 - Homo sapiens cDNA: FLJ22493 fis, clone HRC11063.
BC002330 - Homo sapiens hypothetical protein MGC4692, mRNA (cDNA clone IMAGE:3533548), partial cds.
BC035985 - Homo sapiens hypothetical protein LOC283871, mRNA (cDNA clone IMAGE:4102729).
BC157035 - Synthetic construct Homo sapiens clone IMAGE:100063339, MGC:190748 phosphoglycolate phosphatase (PGP) mRNA, encodes complete protein.
BC156305 - Synthetic construct Homo sapiens clone IMAGE:100061789, MGC:190101 phosphoglycolate phosphatase (PGP) mRNA, encodes complete protein.
AB590051 - Synthetic construct DNA, clone: pFN21AE0296, Homo sapiens PGP gene for phosphoglycolate phosphatase, without stop codon, in Flexi system.
JD474712 - Sequence 455736 from Patent EP1572962.
JD191825 - Sequence 172849 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein A6NDG6 (Reactome details) participates in the following event(s):

R-HSA-8955794 PGP:Mg2+ dimer hydrolyses 3PG to glycerol
R-HSA-70171 Glycolysis
R-HSA-70326 Glucose metabolism
R-HSA-71387 Metabolism of carbohydrates
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: A6NDG6, ENST00000333503.1, ENST00000333503.2, ENST00000333503.3, ENST00000333503.4, ENST00000333503.5, ENST00000333503.6, ENST00000333503.7, NM_001042371, PGP , PGP_HUMAN, uc317trr.1, uc317trr.2
UCSC ID: ENST00000333503.8_7
RefSeq Accession: NM_001042371.3
Protein: A6NDG6 (aka PGP_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.