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PGD Gene

protein-coding   GIFtS: 70
GCID: GC01P010458

Phosphogluconate Dehydrogenase

  See PGD-related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Phosphogluconate Dehydrogenase1 2
EC 1.1.1.443 8
6-Phosphogluconate Dehydrogenase, Decarboxylating2
6PGD2
PGDH3

External Ids:    HGNC: 88911   Entrez Gene: 52262   Ensembl: ENSG000001426577   OMIM: 1722005   UniProtKB: P522093   

Export aliases for PGD gene to outside databases

Previous GC identifers: GC01P010420 GC01P010302 GC01P010068 GC01P010168 GC01P010393 GC01P009613


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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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. (provided by RefSeq, Jul 2008)

GeneCards Summary for PGD Gene:
PGD (phosphogluconate dehydrogenase) is a protein-coding gene. Diseases associated with PGD include 6-phosphogluconate dehydrogenase deficiency, and trypanosomiasis. GO annotations related to this gene include phosphogluconate dehydrogenase (decarboxylating) activity and NADP binding.

UniProtKB/Swiss-Prot: 6PGD_HUMAN, P52209
Function: Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with
concomitant reduction of NADP to NADPH (By similarity)




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000001.10  NC_018912.2  NT_032977.10  
Regulatory elements:
   Regulatory transcription factor binding sites in the PGD gene promoter:
         Bach1   Sox5   NF-1/L   NF-1   HOXA5   NF-AT   C/EBPalpha   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): PGD promoter sequence
   Search Chromatin IP Primers for PGD

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat PGD


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 1p36.22   Ensembl cytogenetic band:  1p36.22   HGNC cytogenetic band: 1p36.22

PGD Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PGD gene location

GeneLoc information about chromosome 1         GeneLoc Exon Structure

GeneLoc location for GC01P010458:  view genomic region     (about GC identifiers)

Start:
10,458,649 bp from pter      End:
10,480,201 bp from pter
Size:
21,553 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: 6PGD_HUMAN, P52209 (See protein sequence)
Recommended Name: 6-phosphogluconate dehydrogenase, decarboxylating  
Size: 483 amino acids; 53140 Da
Subunit: Homodimer
3 PDB 3D structures from and Proteopedia for PGD:
2JKV (3D)        4GWG (3D)        4GWK (3D)    
Secondary accessions: A8K2Y9 Q9BWD8

Explore the universe of human proteins at neXtProt for PGD: NX_P52209

Explore proteomics data for PGD at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys38, Lys59, Lys119, Lys163, Lys265, Lys377
  • Modification sites at PhosphoSitePlus
  • Selected DME Specific Peptides for PGD (P52209) (see all 22)
     IIDGGNS  NWTGHGG  SGGEEGA  LQNLLLD 


    See PGD Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_002622.2  
    ENSEMBL proteins: 
     ENSP00000466358   ENSP00000465311   ENSP00000270776   ENSP00000466156   ENSP00000466574  
     ENSP00000467362   ENSP00000442285   ENSP00000437822  
    Reactome Protein details: P52209

    PGD Human Recombinant Protein Products:

    Browse Purified and Recombinant Proteins at EMD Millipore
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    OriGene Purified Protein for PGD
    OriGene Protein Over-expression Lysate for PGD
    OriGene MassSpec for PGD
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    Novus Biologicals PGD Proteins
    Novus Biologicals PGD Lysates
    Sino Biological Recombinant Protein for PGD
    Browse Sino Biological Cell Lysates
    ProSpec Recombinant Protein for PGD
    Cloud-Clone Corp. Proteins for PGD

     
    Search eBioscience for Proteins for PGD 

    PGD Antibody Products:

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    Abcam antibodies for PGD
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    ThermoFisher Antibody for PGD
    LSBio Antibodies in human, mouse, rat for PGD

    PGD Assay Products:

    Browse Kits and Assays available from EMD Millipore
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    GenScript Custom Assay Services for PGD
    Browse Enzo Life Sciences for kits & assays
    Cloud-Clone Corp. ELISAs for PGD
    Cloud-Clone Corp. CLIAs for PGD
    Search eBioscience for ELISAs for PGD 


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    Selected InterPro protein domains (see all 8):
     IPR006115 6PGDH_NADP-bd
     IPR008927 6-PGluconate_DH_C-like
     IPR006113 6PGDH_decarbox
     IPR006184 6PGdom_BS
     IPR012284 Fibritin/6PGD_C-extension

    Graphical View of Domain Structure for InterPro Entry P52209

    ProtoNet protein and cluster: P52209

    1 Blocks protein domain: IPB006115 6-phosphogluconate dehydrogenase

    UniProtKB/Swiss-Prot: 6PGD_HUMAN, P52209
    Similarity: Belongs to the 6-phosphogluconate dehydrogenase family


    Find genes that share domains with PGD           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: 6PGD_HUMAN, P52209
    Function: Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with
    concomitant reduction of NADP to NADPH (By similarity)
    Catalytic activity: 6-phospho-D-gluconate + NADP(+) = D-ribulose 5-phosphate + CO(2) + NADPH

         Genatlas biochemistry entry for PGD:
    phosphogluconate dehydrogenase,pentose phosphate pathway

         Enzyme Number (IUBMB): EC 1.1.1.441 2

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004616phosphogluconate dehydrogenase (decarboxylating) activity ISS--
    GO:0050661NADP binding IEA--
         
    Find genes that share ontologies with PGD           About GenesLikeMe


    Phenotypes:
         3 GenomeRNAi human phenotypes for PGD:
     Decreased influenza A virus in  Upregulation of Wnt/beta-caten  Wnt reporter downregulated 

         3 MGI mutant phenotypes (inferred from 1 allele(MGI details for Pgd):
     behavior/neurological  other  reproductive system 

    Find genes that share phenotypes with PGD           About GenesLikeMe

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for PGD
       inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for PGD

       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for PGD
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for PGD

    miRNA
    Products:
        
    miRTarBase miRNAs that target PGD:
    hsa-mir-3676-3p (MIRT052873), hsa-let-7e-5p (MIRT051576), hsa-mir-339-5p (MIRT042801), hsa-mir-484 (MIRT042195), hsa-mir-1 (MIRT023542), hsa-mir-181a-5p (MIRT047325), hsa-mir-15b-5p (MIRT046414)

    Block miRNA regulation of human, mouse, rat PGD using miScript Target Protectors
    6 qRT-PCR Assays for microRNAs that regulate PGD:
    hsa-miR-3673 hsa-miR-206 hsa-miR-145 hsa-miR-613 hsa-miR-1 hsa-miR-3616-3p
    SwitchGear 3'UTR luciferase reporter plasmidPGD 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for PGD
    Predesigned siRNA for gene silencing in human, mouse, rat PGD

    Gene Editing
    Products:
    DNA2.0 Custom Protein Engineering Service for PGD

    Clone
    Products:
         
    OriGene clones in human, mouse for PGD (see all 6)
    OriGene ORF clones in mouse, rat for PGD
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): PGD (NM_000860)
    Sino Biological Human cDNA Clone for PGD
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PGD
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PGD

    Cell Line
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    Browse ESI BIO Cell Lines and PureStem Progenitors for PGD 
    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PGD


    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    6PGD_HUMAN, P52209: Cytoplasm (By similarity)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol4
    nucleus2
    peroxisome2
    endoplasmic reticulum1
    mitochondrion1
    plasma membrane1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005829cytosol TAS--
    GO:0070062extracellular vesicular exosome IDA19056867

    Find genes that share ontologies with PGD           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for PGD About   (see all 6)  
    See pathways by source

    SuperPathContained pathways About
    1Carbon metabolism
    Carbon metabolism0.38
    Pentose Phosphate Pathway (Erythrocyte)0.00
    pentose phosphate pathway (oxidative branch)0.00
    2Metabolism
    Metabolism0.38
    Metabolic pathways0.38
    3Pentose Phosphate Pathway (WikiPathways)
    Pentose Phosphate Pathway
    Pentose phosphate pathway (hexose monophosphate shunt)0.00
    4Pentose phosphate pathway (KEGG)
    Pentose phosphate pathway
    pentose phosphate pathway0.00
    5Glutathione metabolism
    Glutathione metabolism0.65


    Find genes that share SuperPaths with PGD           About GenesLikeMe

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    3 BioSystems Pathways for PGD
        pentose phosphate pathway
    pentose phosphate pathway (oxidative branch)
    Pentose Phosphate Pathway


    1 Reactome Pathway for PGD
        Pentose phosphate pathway (hexose monophosphate shunt)

    1 PharmGKB Pathway for PGD
        Pentose Phosphate Pathway (Erythrocyte)

    4 Kegg Pathways  (Kegg details for PGD):
        Pentose phosphate pathway
    Glutathione metabolism
    Metabolic pathways
    Carbon metabolism

    UniProtKB/Swiss-Prot: 6PGD_HUMAN, P52209
    Pathway: Carbohydrate degradation; pentose phosphate pathway; D-ribulose 5-phosphate from D-glucose 6-phosphate
    (oxidative stage): step 3/3

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for PGD
    Interactions:

        Search GeneGlobe Interaction Network for PGD

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for PGD (P522091, 2, 3 ENSP000002707764) via UniProtKB, MINT, STRING, and/or I2D (see all 218)

    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=2 
    HIST1H4BP628053I2D: score=2 
    HIST1H4CP628053I2D: score=2 
    HIST1H4DP628053I2D: score=2 
    HIST1H4EP628053I2D: score=2 
    About this table

    Gene Ontology (GO): Selected biological process terms (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005975carbohydrate metabolic process TAS--
    GO:0006098pentose-phosphate shunt TAS--
    GO:0009051pentose-phosphate shunt, oxidative branch IDA3858849
    GO:0019322pentose biosynthetic process IEA--
    GO:0019521D-gluconate metabolic process IEA--

    Find genes that share ontologies with PGD           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for PGD (6PGD)

    8 HMDB Compounds for PGD    About this table
    CompoundSynonyms CAS #PubMed Ids
    6-Phosphogluconic acid6-Phospho-D-gluconate (see all 9)921-62-0--
    Angiotensin IIHypertensin (see all 11)11128-99-7--
    Carbon dioxideCarbon oxide (see all 5)124-38-9--
    D-Ribulose 5-phosphateD-Ribulose 5-phosphate (see all 5)4151-19-3--
    Manganesemanganese 7439-96-5--
    NADPAdenine-nicotinamide dinucleotide phosphate (see all 18)53-59-8--
    NADPH2'-(dihydrogen phosphate) 5'-(trihydrogen pyrophosphate) Adenosine 5'-ester with 1,4-dihydro-1-b-D-ribofuranosylnicotinamide (see all 23)53-57-6--
    Phenolacide carbolique (see all 51)108-95-2--

    10 DrugBank Compounds for PGD    About this table
    CompoundSynonyms CAS #TypeActionsPubMed Ids
    6-Phosphogluconic Acid-- --target--17139284 17016423 10592235
    Nicotinamide 8-Bromo-Adenine Dinucleotide Phosphate-- --target--17139284 17016423 10592235
    Pyrophosphate 2--- --target--17139284 17016423 10592235
    DacarbazineBiocarbazine R (see all 9)4342-03-4targetinhibitor20235752 10592235
    FurosemideDihydroflumethiazide (see all 12)54-31-9enzymeinhibitor20235752 10592235
    Gadopentetate dimeglumine-- 86050-77-3targetinhibitor20235752 10592235
    KetotifenKetotifen Fumarate (see all 5)34580-14-8targetinhibitor20235752 10592235
    Meloxicam-- 71125-38-7enzymeinhibitor20235752 10592235
    MethotrexateAmethopterin (see all 12)59-05-2enzymeinhibitor20235752 10592235
    RitodrineRitodrina [INN-Spanish] (see all 4)26652-09-5enzymeinhibitor20235752 10592235

    Selected Novoseek inferred chemical compound relationships for PGD gene (see all 42)    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    6-phosphogluconate 98.6 214 8790979 (4), 15544466 (3), 9839447 (3), 15374447 (3) (see all 99)
    glucose 6-phosphate 87.8 92 8790979 (3), 8955144 (2), 1637668 (2), 2127144 (2) (see all 64)
    6-phosphogluconolactone 80 2 8948658 (1)
    ribulose 5-phosphate 73.2 7 15553090 (1), 16459157 (1), 8448161 (1)
    6-aminonicotinamide 70.5 4 9307279 (1), 8626749 (1), 8687139 (1)
    nadph 64.1 11 2109668 (1), 8955144 (1), 17570834 (1), 20127344 (1) (see all 10)
    isocitrate 62.4 7 8825442 (1), 1680129 (1), 1471744 (1), 1868063 (1) (see all 6)
    malate 60.6 11 9041338 (1), 20127344 (1), 8825442 (1), 18817779 (1) (see all 7)
    glyceraldehyde 3-phosphate 56.7 11 9839447 (3), 1471744 (1), 10772695 (1), 1868063 (1) (see all 7)
    3alpha-hydroxysteroid 56.3 2 2009030 (1), 7504419 (1)



    Find genes that share compounds with PGD           About GenesLikeMe



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for PGD gene: 
    NM_002631.2  

    Unigene Cluster for PGD:

    Phosphogluconate dehydrogenase
    Hs.464071  [show with all ESTs]
    Unigene Representative Sequence: AK298830
    12 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000491493 ENST00000487775 ENST00000477958 ENST00000270776(uc001arc.3 uc010oak.2)
    ENST00000483936 ENST00000465632 ENST00000460189 ENST00000493288 ENST00000498356
    ENST00000496718 ENST00000541529 ENST00000538557
    miRNA
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    6 qRT-PCR Assays for microRNAs that regulate PGD:
    hsa-miR-3673 hsa-miR-206 hsa-miR-145 hsa-miR-613 hsa-miR-1 hsa-miR-3616-3p
    SwitchGear 3'UTR luciferase reporter plasmidPGD 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat PGD
    Clone
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    OriGene clones in human, mouse for PGD (see all 6)
    OriGene ORF clones in mouse, rat for PGD
    OriGene custom cloning services - gene synthesis, subcloning, mutagenesis, variant library, vector shuttling
    GenScript: all cDNA clones in your preferred vector (see all 2): PGD (NM_000860)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PGD
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PGD
    Primer
    Products:
        
    OriGene qPCR primer pairs and template standards for PGD
    OriGene qSTAR qPCR primer pairs in human, mouse for PGD
    Pre-validated RT2 qPCR Primer Assay in human, mouse, rat PGD
      QuantiTect SYBR Green Assays in human, mouse, rat PGD
      QuantiFast Probe-based Assays in human, mouse, rat PGD

    Additional mRNA sequence: 

    AK290404.1 AK296889.1 AK298830.1 AK300952.1 AK303898.1 AK304423.1 BC000368.2 U30255.1 

    Selected DOTS entries (see all 41):

    DT.455224  DT.100837729  DT.121327365  DT.100871675  DT.100871676  DT.95073844  DT.97860666  DT.100871664 
    DT.121327267  DT.100871666  DT.102838651  DT.121327407  DT.99930494  DT.121327373  DT.121327501  DT.100038769 
    DT.121327357  DT.95073873  DT.121327313  DT.121327406  DT.75182825  DT.92459694  DT.95073847  DT.100769693 

    Selected AceView cDNA sequences (see all 1030):

    BU857662 BM672451 BU540495 BF726975 BF939474 AA406591 AI916107 BQ278613 
    BG034019 NM_002631 BM741938 CR607764 AU107206 AI417610 BP345661 BE617317 
    BE294458 BU165102 BM015456 CD653380 BQ894796 BM798418 BE740446 N46014 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for PGD (see all 13)    About this scheme

    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:                                                              -           -     -                                                                           

    ExUns: 11a · 11b · 11c ^ 12 ^ 13a · 13b · 13c ^ 14a · 14b
    SP1:  -                       -           -               
    SP2:                                                      
    SP3:                                                      
    SP4:                                                      
    SP5:                                                      


    ECgene alternative splicing isoforms for PGD

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    PGD expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CGGCTGAATT
    PGD Expression
    About this image


    PGD expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 12) fully expand
     
     Gut Tube (Gastrointestinal Tract)
             Foregut
     
     Bone (Muscoskeletal System)
             Bone Marrow
     
     Neural Tube (Nervous System)
             Telencephalon
     
     Blood (Hematopoietic System)
             Monocytes Peripheral Blood
     
     Colon (Gastrointestinal Tract)
    PGD Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    PGD Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.464071
        Custom PCR Arrays for PGD
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of eukaryotes.

    Orthologs for PGD gene from Selected species (see all 30)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Pgd1 , 5 phosphogluconate dehydrogenase1, 5 87.85(n)1
    94(a)1
      4 (78.96 cM)5
    1102081  NM_001081274.11  NP_001074743.11 
     1491499915 
    chicken
    (Gallus gallus)
    Aves PGD1 phosphogluconate dehydrogenase 80.43(n)
    90.04(a)
      419450  NM_001006303.1  NP_001006303.1 
    lizard
    (Anolis carolinensis)
    Reptilia PGD6
    phosphogluconate dehydrogenase
    89(a)
    1 ↔ 1
    GL343565.1(343338-361981)
    African clawed frog
    (Xenopus laevis)
    Amphibia MGC684862 hypothetical protein MGC68486 76.18(n)    BC059958.1 
    zebrafish
    (Danio rerio)
    Actinopterygii Dr.66192 Danio rerio similar to phosphogluconate dehydrogenase, more 76.94(n)    AY391449.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta Pgd1 , 3 pentose-phosphate shunt
    phosphogluconate dehydrogenase
    more3
    Phosphogluconate dehydrogenase1
    71(a)3
    67.15(n)1
    72.38(a)1
      2D43
    311851  NM_057512.31  NP_476860.21 
    worm
    (Caenorhabditis elegans)
    Secernentea T25B9.91 T25B9.9 63.62(n)
    69.92(a)
      177971  NM_069597.5  NP_501998.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes GND1(YHR183W)4
    GND11
    6-phosphogluconate dehydrogenase (decarboxylating), more4
    GND11
    62.35(n)1
    66.81(a)1
      8(470960-472429)4
    8565891, 4  NP_012053.31  NP_012053.14 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT5G416701 AT5G41670 53.43(n)
    52.15(a)
      834169  NM_123531.2  NP_198982.1 
    rice
    (Oryza sativa)
    Liliopsida AK065920.12   -- 78.06(n)    AK065920.1 


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

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for PGD gene

    Find genes that share paralogs with PGD           About GenesLikeMe


    2 Pseudogenes.org Pseudogenes for PGD
    PGOHUM00000239859 PGOHUM00000235036


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for PGD (see all 593)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 1 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs803455871,2
    C,F--10457121(+) CATTAA/GTGGAA 1 -- us2k11Minor allele frequency- G:0.03NA 120
    rs1382236411,2
    --10457179(+) GATGAA/GCCTCA 1 -- us2k10--------
    rs579024531,2
    C,F--10457451(+) TGACAT/CGTAAA 1 -- us2k12Minor allele frequency- C:0.13CSA WA 120
    rs771735931,2
    F--10457496(+) TGTGCT/GGTGAA 1 -- us2k11Minor allele frequency- G:0.03NA 120
    rs611667751,2
    C,F--10457529(+) ATGTCT/GTAGCC 1 -- us2k11Minor allele frequency- G:0.12WA 118
    rs124097541,2
    C,F,A,H--10457540(+) gggcaT/Cggtgt 1 -- us2k121Minor allele frequency- C:0.35NS EA NA WA CSA 2348
    rs1436036731,2
    --10457575(+) CAGGAA/GGTTGA 1 -- us2k10--------
    rs1839934051,2
    --10457673(+) GACCTA/GGTCTT 1 -- us2k10--------
    rs124107061,2
    H--10457741(+) gggagA/Gctgag 1 -- us2k10--------
    rs124097821,2
    H--10457752(+) gtgggA/Tggatc 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for PGD (10458649 - 10480201 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for PGD:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv1010529CNV Deletion20482838
    nsv8213CNV Gain18304495
    essv3548CNV CNV17122850
    dgv17e1CNV Complex17122850

    Human Gene Mutation Database (HGMD): PGD
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing PGD
    DNA2.0 Custom Variant and Variant Library Synthesis for PGD

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    OMIM gene information: 172200    OMIM disorders: --

    4 diseases for PGD:    
    About MalaCards
    6-phosphogluconate dehydrogenase deficiency    trypanosomiasis    leishmaniasis    cutaneous leishmaniasis

    1 disease from the University of Copenhagen DISEASES database for PGD:
    Leishmaniasis

    Find genes that share disorders with PGD           About GenesLikeMe

    8 Novoseek inferred disease relationships for PGD gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    enzymopathy 65.5 2 11233775 (1)
    leishmaniasis cutaneous 57.6 1 9574789 (1)
    g6pd deficiency 43.2 3 11233775 (2)
    trypanosomiasis african 38.2 1 17615587 (1)
    leishmaniasis visceral 13.2 1 2149740 (1)
    tumors 2.26 2 8955144 (1), 18665625 (1)
    anemia 0 1 11233775 (1)
    carcinoma 0 1 2064345 (1)

    Genetic Association Database (GAD): PGD
    Human Genome Epidemiology (HuGE) Navigator: PGD (11 documents)

    Export disorders for PGD gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for PGD gene, integrated from 10 sources (see all 220):
    (articles sorted by number of sources associating them with PGD)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Identification of a cDNA encoding 6-phosphogluconate dehydrogenase from a human heart cDNA library. (PubMed id 8978909)1, 2, 9 Tsui S.K.W.... Lee C.-Y. (Biochem. Genet. 1996)
    2. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    3. Genome-wide association study identifies 1p36.22 as a new susceptibility locus for hepatocellular carcinoma in chronic hepatitis B virus carriers. (PubMed id 20676096)1, 4 Zhang H....Zhou G. (Nat. Genet. 2010)
    4. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    5. 6-Phosphogluconate dehydrogenase: the mechanism of action investigated by a comparison of the enzyme from different species. (PubMed id 9920387)1, 9 Rippa M....Hanau S. (Biochim. Biophys. Acta 1998)
    6. Localization and identification of sumoylated proteins in human sperm: excessive sumoylation is a marker of defective spermatozoa. (PubMed id 23077236)1 Vigodner M....Callaway M. (Hum. Reprod. 2013)
    7. 6-Phosphogluconate dehydrogenase regulates tumor cell migration in vitro by regulating receptor tyrosine kinase c-Met. (PubMed id 23973484)1 Chan B....Sukhatme V.P. (Biochem. Biophys. Res. Commun. 2013)
    8. A high-throughput approach for measuring temporal changes in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (Nat. Methods 2012)
    9. Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin. (PubMed id 22053931)1 Oshikawa K....Nakayama K.I. (J. Proteome Res. 2012)
    10. Glycolytic cancer cells lacking 6-phosphogluconate dehydrogenase metabolize glucose to induce senescence. (PubMed id 22677172)1 Sukhatme V.P. and Chan B. (FEBS Lett. 2012)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 5226 HGNC: 8891 AceView: PGDandKIF1B Ensembl:ENSG00000142657 euGenes: HUgn5226
    ECgene: PGD Kegg: 5226 H-InvDB: PGD

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
    About This Section

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    NameDescription
    PharmGKB entry for PGD Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for PGD gene:
    Search GeneIP for patents involving PGD

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, eBioscience, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
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