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Aliases for PGD Gene

Aliases for PGD Gene

  • Phosphogluconate Dehydrogenase 2 3 5
  • EC 1.1.1.44 4 63
  • PGDH 4
  • 6PGD 3

External Ids for PGD Gene

Previous GeneCards Identifiers for PGD Gene

  • GC01P010420
  • GC01P010302
  • GC01P010068
  • GC01P010168
  • GC01P010393
  • GC01P009613
  • GC01P010458

Summaries for PGD Gene

Entrez Gene Summary for PGD Gene

  • 6-phosphogluconate dehydrogenase is the second dehydrogenase in the pentose phosphate shunt. Deficiency of this enzyme is generally asymptomatic, and the inheritance of this disorder is autosomal dominant. Hemolysis results from combined deficiency of 6-phosphogluconate dehydrogenase and 6-phosphogluconolactonase suggesting a synergism of the two enzymopathies. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jan 2015]

GeneCards Summary for PGD Gene

PGD (Phosphogluconate Dehydrogenase) is a Protein Coding gene. Diseases associated with PGD include Cutaneous Leishmaniasis and 6-Phosphogluconate Dehydrogenase Deficiency. Among its related pathways are Glycosaminoglycan metabolism and Glucose / Energy Metabolism. GO annotations related to this gene include NADP binding and phosphogluconate dehydrogenase (decarboxylating) activity.

UniProtKB/Swiss-Prot for PGD Gene

  • Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH.

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

Genomics for PGD Gene

Regulatory Elements for PGD Gene

Enhancers for PGD Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around PGD on UCSC Golden Path with GeneCards custom track

Promoters for PGD Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around PGD on UCSC Golden Path with GeneCards custom track

Genomic Location for PGD Gene

Chromosome:
1
Start:
10,398,592 bp from pter
End:
10,420,511 bp from pter
Size:
21,920 bases
Orientation:
Plus strand

Genomic View for PGD Gene

Genes around PGD on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for PGD Gene

Proteins for PGD Gene

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

    Protein Symbol:
    P52209-6PGD_HUMAN
    Recommended name:
    6-phosphogluconate dehydrogenase, decarboxylating
    Protein Accession:
    P52209
    Secondary Accessions:
    • A8K2Y9
    • B4DQJ8
    • Q9BWD8

    Protein attributes for PGD Gene

    Size:
    483 amino acids
    Molecular mass:
    53140 Da
    Quaternary structure:
    • Homodimer.

    Three dimensional structures from OCA and Proteopedia for PGD Gene

    Alternative splice isoforms for PGD Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for PGD Gene

Proteomics data for PGD Gene at MOPED

Post-translational modifications for PGD Gene

  • Ubiquitination at Lys 119, Lys 163, Lys 265, and Lys 377
  • Modification sites at PhosphoSitePlus

Domains & Families for PGD Gene

Graphical View of Domain Structure for InterPro Entry

P52209

UniProtKB/Swiss-Prot:

6PGD_HUMAN :
  • Belongs to the 6-phosphogluconate dehydrogenase family.
Family:
  • Belongs to the 6-phosphogluconate dehydrogenase family.
genes like me logo Genes that share domains with PGD: view

No data available for Gene Families for PGD Gene

Function for PGD Gene

Molecular function for PGD Gene

GENATLAS Biochemistry:
phosphogluconate dehydrogenase,pentose phosphate pathway
UniProtKB/Swiss-Prot CatalyticActivity:
6-phospho-D-gluconate + NADP(+) = D-ribulose 5-phosphate + CO(2) + NADPH.
UniProtKB/Swiss-Prot Function:
Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH.

Enzyme Numbers (IUBMB) for PGD Gene

genes like me logo Genes that share phenotypes with PGD: view

Animal Models for PGD Gene

MGI Knock Outs for PGD:
  • Pgd tm1a(EUCOMM)Wtsi

Animal Model Products

No data available for Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for PGD Gene

Localization for PGD Gene

Subcellular locations from UniProtKB/Swiss-Prot for PGD Gene

Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for PGD Gene COMPARTMENTS Subcellular localization image for PGD gene
Compartment Confidence
cytosol 5
extracellular 5
nucleus 5
mitochondrion 3
plasma membrane 3
cytoskeleton 2
peroxisome 2
chloroplast 1
endoplasmic reticulum 1

No data available for Gene Ontology (GO) - Cellular Components for PGD Gene

Pathways & Interactions for PGD Gene

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

Pathways by source for PGD Gene

UniProtKB/Swiss-Prot P52209-6PGD_HUMAN

  • Pathway: Carbohydrate degradation; pentose phosphate pathway; D-ribulose 5-phosphate from D-glucose 6-phosphate (oxidative stage): step 3/3.

Gene Ontology (GO) - Biological Process for PGD Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006098 pentose-phosphate shunt IEA,TAS --
GO:0009051 pentose-phosphate shunt, oxidative branch IDA 3858849
GO:0019322 pentose biosynthetic process IEA --
GO:0044281 small molecule metabolic process TAS --
genes like me logo Genes that share ontologies with PGD: view

No data available for SIGNOR curated interactions for PGD Gene

Drugs & Compounds for PGD Gene

(45) Drugs for PGD Gene - From: DrugBank, ClinicalTrials, HMDB, and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Dacarbazine Approved, Investigational Pharma Target, inhibitor 648
Furosemide Approved Pharma Agonist, Enzyme, inhibitor GABAA receptors antagonist, Na+/2Cl-/K+ (NKCC) symporter inhibitor. Also antagonizes GABAA 177
Gadopentetate dimeglumine Approved Pharma Target, inhibitor 0
Ketotifen Approved Pharma Target, inhibitor 21
Meloxicam Approved Pharma Enzyme, inhibitor 75

(34) Additional Compounds for PGD Gene - From: Novoseek and HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
nadph
  • 2'-(Dihydrogen phosphate) 5'-(trihydrogen pyrophosphate) Adenosine 5'-ester with 1,4-dihydro-1-b-D-ribofuranosylnicotinamide
  • 2'-(Dihydrogen phosphate) 5'-(trihydrogen pyrophosphate) Adenosine 5'-ester with 1,4-dihydro-1-beta-delta-ribofuranosylnicotinamide
  • Adenosine 5'-(trihydrogen diphosphate) 2'-(dihydrogen phosphate) P'-5'-ester with 1,4-dihydro-1-beta-D-ribofuranosyl-3-pyridinecarboxamide
  • Adenosine 5'-(trihydrogen diphosphate) 2'-(dihydrogen phosphate) P'-5'-ester with 1,4-dihydro-1-beta-delta-ribofuranosyl-3-pyridinecarboxamide
  • b-NADPH
53-57-6
carbon dioxide
  • Carbon oxide
  • Carbon-12 dioxide
  • Carbonic acid anhydride
  • Carbonic acid gas
  • Carbonic anhydride
124-38-9
D-Ribulose 5-phosphate
  • alpha-D-Ribose 5-phosphate
  • D-Ribulose 5-phosphate
  • Erythro-Pentulose 5-phosphate
  • Ribulose 5-phosphate
  • Ribulose phosphate
4151-19-3
Hydrogen Ion
  • Hydrogen cation
  • Hydron
  • Proton
NADP
  • Adenine-nicotinamide dinucleotide phosphate
  • b-NADP
  • b-Nicotinamide adenine dinucleotide phosphate
  • b-TPN
  • beta-NADP
53-59-8
genes like me logo Genes that share compounds with PGD: view

Transcripts for PGD Gene

Unigene Clusters for PGD Gene

Phosphogluconate dehydrogenase:
Representative Sequences:

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

ExUns: 1 ^ 2a · 2b · 2c · 2d · 2e ^ 3a · 3b · 3c · 3d ^ 4a · 4b ^ 5a · 5b ^ 6a · 6b ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b · 10c ^
SP1: - -
SP2: - - -
SP3: -
SP4: - - - -
SP5: - - -
SP6: - - - - - - -
SP7: - - -
SP8: -
SP9: - - - - - - - - - - -
SP10: - - - - - - - - - - -
SP11: - - - - - - - -
SP12:
SP13:

ExUns: 11a · 11b · 11c ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b
SP1: - - -
SP2:
SP3:
SP4:
SP5:
SP6:
SP7:
SP8:
SP9:
SP10:
SP11: -
SP12: -
SP13: -

Relevant External Links for PGD Gene

GeneLoc Exon Structure for
PGD
ECgene alternative splicing isoforms for
PGD

Expression for PGD Gene

mRNA expression in normal human tissues for PGD Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

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

This gene is overexpressed in Whole Blood (x19.2) and Esophagus - Mucosa (x5.5).

Protein differential expression in normal tissues from HIPED for PGD Gene

This gene is overexpressed in Neutrophil (6.4).

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



SOURCE GeneReport for Unigene cluster for PGD Gene Hs.464071

genes like me logo Genes that share expression patterns with PGD: view

Protein tissue co-expression partners for PGD Gene

Primer Products

No data available for mRNA Expression by UniProt/SwissProt for PGD Gene

Orthologs for PGD Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for PGD Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia PGD 35
  • 88.34 (n)
  • 94.82 (a)
PGD 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia PGD 35
  • 88.75 (n)
  • 94.62 (a)
PGD 36
  • 95 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Pgd 35
  • 87.85 (n)
  • 94 (a)
Pgd 16
Pgd 36
  • 94 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia PGD 35
  • 94.55 (n)
  • 94.01 (a)
PGD 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia LOC100360180 35
  • 86.75 (n)
  • 93.17 (a)
oppossum
(Monodelphis domestica)
Mammalia PGD 36
  • 89 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia PGD 36
  • 93 (a)
OneToOne
chicken
(Gallus gallus)
Aves PGD 35
  • 80.43 (n)
  • 90.04 (a)
PGD 36
  • 90 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia PGD 36
  • 89 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia pgd 35
  • 74.43 (n)
  • 86.69 (a)
Str.15342 35
African clawed frog
(Xenopus laevis)
Amphibia MGC68486 35
zebrafish
(Danio rerio)
Actinopterygii Dr.6619 35
pgd 35
  • 75.5 (n)
  • 87.58 (a)
pgd 36
  • 83 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.45 35
fruit fly
(Drosophila melanogaster)
Insecta Pgd 37
  • 71 (a)
Pgd 35
  • 67.15 (n)
  • 72.38 (a)
Pgd 36
  • 72 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP004197 35
  • 66.81 (n)
  • 71.55 (a)
worm
(Caenorhabditis elegans)
Secernentea T25B9.9 35
  • 63.62 (n)
  • 69.92 (a)
T25B9.9 36
  • 70 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AFR129W 35
  • 63.26 (n)
  • 65.83 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0A09339g 35
  • 63.38 (n)
  • 67.92 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes GND1 35
  • 62.35 (n)
  • 66.81 (a)
GND1 36
  • 65 (a)
OneToMany
GND2 36
  • 64 (a)
OneToMany
GND1 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G41670 35
  • 53.43 (n)
  • 52.15 (a)
Alicante grape
(Vitis vinifera)
eudicotyledons Vvi.6832 35
rice
(Oryza sativa)
Liliopsida Os11g0484500 35
  • 55.44 (n)
  • 51.62 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.13189 35
bread mold
(Neurospora crassa)
Ascomycetes NCU03100 35
  • 65.97 (n)
  • 67.92 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPBC660.16 35
  • 61.31 (n)
  • 67.64 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 76 (a)
OneToOne
Species with no ortholog for PGD:
  • Actinobacteria (Mycobacterium tuberculosis)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for PGD Gene

ENSEMBL:
Gene Tree for PGD (if available)
TreeFam:
Gene Tree for PGD (if available)

Paralogs for PGD Gene

Pseudogenes.org Pseudogenes for PGD Gene

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

No data available for Paralogs for PGD Gene

Variants for PGD Gene

Sequence variations from dbSNP and Humsavar for PGD Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs11547610 - 10,413,209(+) GGACC(A/G/T)CCATC reference, missense
rs505445 -- 10,402,027(-) taatt(A/T)attta intron-variant
rs1134021 -- 10,420,210(+) AGAAA(A/G)ATTTT utr-variant-3-prime
rs1134024 -- 10,420,313(+) TTTAA(A/T)ACCCT utr-variant-3-prime
rs1134026 -- 10,420,425(+) GGCAA(A/G)CTGTG utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
dgv17e1 CNV Complex 17122850
essv3548 CNV CNV 17122850
nsv8213 CNV Gain 18304495
esv1010529 CNV Deletion 20482838

Variation tolerance for PGD Gene

Residual Variation Intolerance Score: 11.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.01; 60.32% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for PGD Gene

Human Gene Mutation Database (HGMD)
PGD

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

Disorders for PGD Gene

MalaCards: The human disease database

(8) MalaCards diseases for PGD Gene - From: DISEASES, Novoseek, and GeneCards

Disorder Aliases PubMed IDs
cutaneous leishmaniasis
  • asian desert cutaneous leishmaniasis
6-phosphogluconate dehydrogenase deficiency
visceral leishmaniasis
  • infection by visceral leishmaniasis
glucosephosphate dehydrogenase deficiency
  • deficiency of g-6pd
sleeping sickness
  • african sleeping sickness
- elite association - COSMIC cancer census association via MalaCards
Search PGD in MalaCards View complete list of genes associated with diseases

Relevant External Links for PGD

Genetic Association Database (GAD)
PGD
Human Genome Epidemiology (HuGE) Navigator
PGD
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
PGD
genes like me logo Genes that share disorders with PGD: view

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

Publications for PGD Gene

  1. Identification of a cDNA encoding 6-phosphogluconate dehydrogenase from a human heart cDNA library. (PMID: 8978909) Tsui S.K.W. … Lee C.-Y. (Biochem. Genet. 1996) 3 4 23 67
  2. Effects of some drugs on human erythrocyte 6-phosphogluconate dehydrogenase: an in vitro study. (PMID: 20235752) Akkemik E. … Ciftci M. (J Enzyme Inhib Med Chem 2010) 25 26
  3. The Protein Data Bank. (PMID: 10592235) Berman H.M. … Bourne P.E. (Nucleic Acids Res. 2000) 25 26
  4. 6-Phosphogluconate dehydrogenase: the mechanism of action investigated by a comparison of the enzyme from different species. (PMID: 9920387) Rippa M. … Hanau S. (Biochim. Biophys. Acta 1998) 3 23
  5. Panorama of ancient metazoan macromolecular complexes. (PMID: 26344197) Wan C. … Emili A. (Nature 2015) 3

Products for PGD Gene

Sources for PGD Gene

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