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    pgd phosphogluconate dehydrogenase [ Danio rerio (zebrafish) ]

    Gene ID: 406762, updated on 12-Jan-2025

    Summary

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    Official Symbol
    pgdprovided by ZNC
    Official Full Name
    phosphogluconate dehydrogenaseprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2807
    See related
    Ensembl:ENSDARG00000015343 AllianceGenome:ZFIN:ZDB-GENE-040426-2807
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fi03d03; zgc:55585; wu:fi03d03; zgc:111848
    Summary
    Predicted to enable NADP binding activity and phosphogluconate dehydrogenase (decarboxylating) activity. Predicted to be involved in D-gluconate catabolic process and pentose-phosphate shunt, oxidative branch. Predicted to act upstream of or within D-gluconate metabolic process and pentose-phosphate shunt. Predicted to be active in cytosol. Is expressed in several structures, including axis; chordo neural hinge; digestive system; sensory system; and solid lens vesicle. Orthologous to human PGD (phosphogluconate dehydrogenase). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    human mouse all
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    Genomic context

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    See pgd in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (29381441..29394485, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (29454900..29467944, complement)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene TAR DNA binding protein a Neighboring gene somatostatin 6 Neighboring gene kinesin family member 1B Neighboring gene ubiquitination factor E4B, UFD2 homolog (S. cerevisiae)

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Reactive oxygen species participate in liver function recovery during compensatory growth in zebrafish (Danio rerio). Jia J, et al. Biochem Biophys Res Commun, 2018 May 5. PMID 29574160
    2. Fate and effects of silver nanoparticles on early life-stage development of zebrafish (Danio rerio) in comparison to silver nitrate. Cambier S, et al. Sci Total Environ, 2018 Jan 1. PMID 28838034
    3. Microarray and metabolome analysis of hepatic response to fasting and subsequent refeeding in zebrafish (Danio rerio). Jia J, et al. BMC Genomics, 2019 Dec 2. PMID 31791229, Free PMC Article
    4. Spatiotemporal expression and transcriptional regulation of heme oxygenase and biliverdin reductase genes in zebrafish (Danio rerio) suggest novel roles during early developmental periods of heightened oxidative stress. Holowiecki A, et al. Comp Biochem Physiol C Toxicol Pharmacol, 2017 Jan. PMID 27760386, Free PMC Article
    5. Tanshinone I, a new EZH2 inhibitor restricts normal and malignant hematopoiesis through upregulation of MMP9 and ABCG2. Huang Y, et al. Theranostics, 2021. PMID 34093860, Free PMC Article

    See all (25) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables NADP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables NADP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables oxidoreductase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphogluconate dehydrogenase (decarboxylating) activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables phosphogluconate dehydrogenase (decarboxylating) activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in D-gluconate catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within D-gluconate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within pentose-phosphate shunt IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in pentose-phosphate shunt, oxidative branch IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    6-phosphogluconate dehydrogenase, decarboxylating
    Names
    phosphogluconate hydrogenase
    NP_998618.2

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_213453.2 → NP_998618.2  6-phosphogluconate dehydrogenase, decarboxylating

      Status: VALIDATED

      Source sequence(s)
      CR381616
      UniProtKB/TrEMBL
      A0A8M1PF85, F1Q883
      Related
      ENSDARP00000007588.7, ENSDART00000017728.8
      Conserved Domains (3) summary
      PRK09287
      Location:42 → 501
      PRK09287; 6-phosphogluconate dehydrogenase; Validated
      pfam00393
      Location:208 → 497
      6PGD; 6-phosphogluconate dehydrogenase, C-terminal domain
      pfam03446
      Location:31 → 204
      NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007134.7 Reference GRCz11 Primary Assembly

      Range
      29381441..29394485 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395156.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      116241..129252 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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