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Pgd phosphogluconate dehydrogenase [ Rattus norvegicus (Norway rat) ]

Gene ID: 100360180, updated on 13-Apr-2024

Summary

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Official Symbol
Pgdprovided by RGD
Official Full Name
phosphogluconate dehydrogenaseprovided by RGD
Primary source
RGD:1583832
See related
Ensembl:ENSRNOG00000057626 AllianceGenome:RGD:1583832
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Cc2-27
Summary
Enables several functions, including NADP binding activity; carboxylic acid binding activity; and phosphogluconate dehydrogenase (decarboxylating) activity. Involved in D-gluconate metabolic process and pentose-phosphate shunt, oxidative branch. Located in intracellular membrane-bounded organelle. Orthologous to human PGD (phosphogluconate dehydrogenase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Adrenal (RPKM 952.0), Liver (RPKM 321.4) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
5q36
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (164865830..164882029, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (159582746..159598945, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (165966128..165982327, complement)

Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene cortistatin Neighboring gene centromere protein S Neighboring gene kinesin family member 1B Neighboring gene uncharacterized LOC134487037 Neighboring gene uncharacterized LOC102547502

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Purification and kinetic properties of 6-phosphogluconate dehydrogenase from rat small intestine. Ceyhan D, et al. Protein J, 2005 Jul. PMID 16284727
  2. Tissue specific, sex and age--related differences in the 6-phosphogluconate dehydrogenase gene expression. Pankiewicz A, et al. Int J Biochem Cell Biol, 2003 Feb. PMID 12479874
  3. Examination of changes in enzyme activities of erythrocyte glucose 6-phosphate dehydrogenase and 6-phosphogluconate dehydrogenase in rats given Naringenin and Lead acetate. Demirdag R, et al. J Biochem Mol Toxicol, 2015 Jan. PMID 25228019
  4. Proteome profile of the mature rat olfactory bulb. Maurya DK, et al. Proteomics, 2009 May. PMID 19343716
  5. 6-Phosphogluconate dehydrogenase: the mechanism of action investigated by a comparison of the enzyme from different species. Rippa M, et al. Biochim Biophys Acta, 1998 Dec 8. PMID 9920387

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Examination of changes in enzyme activities of erythrocyte glucose 6-phosphate dehydrogenase and 6-phosphogluconate dehydrogenase in rats given Naringenin and Lead acetate.
    Title: Examination of changes in enzyme activities of erythrocyte glucose 6-phosphate dehydrogenase and 6-phosphogluconate dehydrogenase in rats given Naringenin and Lead acetate.
  2. The enzymes of glucose 6-phosphate dehydrogenase, 6-phosphogluconate dehydrogenase,and glutathione reductase were purified from rat kidney in one chromatographic step consisting of the use of the 2',5'-ADP Sepharose 4B by using different elution buffers.
    Title: Purification of rat kidney glucose 6-phosphate dehydrogenase, 6-phosphogluconate dehydrogenase, and glutathione reductase enzymes using 2',5'-ADP Sepharose 4B affinity in a single chromatography step.
  3. Data presented in thid paper indicate that: (1) the age-related changes in 6-phosphogluconate dehydrogenase (6PGDH) activity depend on sex and tissue
    Title: Tissue specific, sex and age--related differences in the 6-phosphogluconate dehydrogenase gene expression.
  4. The relatively small Ki for the 6PGD:NADPH complex indicates the importance of NADPH in the regulation of the pentose phosphate pathway through G6PD and 6PGD.
    Title: Purification and kinetic properties of 6-phosphogluconate dehydrogenase from rat small intestine.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables NADP binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables NADP binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables NADP binding IEA
Inferred from Electronic Annotation
more info
  
enables carbohydrate binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables carboxylic acid binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables microtubule binding IEA
Inferred from Electronic Annotation
more info
  
enables microtubule motor 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 IDA
Inferred from Direct Assay
more info
 PubMed 
enables phosphogluconate dehydrogenase (decarboxylating) activity IEA
Inferred from Electronic Annotation
more info
  
enables phosphogluconate dehydrogenase (decarboxylating) activity ISO
Inferred from Sequence Orthology
more info
  
enables phosphogluconate dehydrogenase (decarboxylating) activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables protein heterodimerization 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
  
involved_in D-gluconate metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in NADP metabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in microtubule-based movement IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within pentose biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in pentose-phosphate shunt IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in pentose-phosphate shunt ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in pentose-phosphate shunt, oxidative branch IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in pentose-phosphate shunt, oxidative branch IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in pentose-phosphate shunt, oxidative branch ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of FANCM-MHF complex IEA
Inferred from Electronic Annotation
more info
  
located_in axon IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasmic vesicle IEA
Inferred from Electronic Annotation
more info
  
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in cytosol ISO
Inferred from Sequence Orthology
more info
  
located_in microtubule IEA
Inferred from Electronic Annotation
more info
  
located_in synapse IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
6-phosphogluconate dehydrogenase, decarboxylating
Names
6-phosphogluconate dehydrogenase, decarboxylating-like
NP_001292364.1

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_001305435.1 → NP_001292364.1  6-phosphogluconate dehydrogenase, decarboxylating

    See identical proteins and their annotated locations for NP_001292364.1

    Status: VALIDATED

    Source sequence(s)
    FM036675, FM065848, FN802313, JAXUCZ010000005
    UniProtKB/Swiss-Prot
    P85968
    UniProtKB/TrEMBL
    A6IUA2, A6IUA3
    Related
    ENSRNOP00000082532.1, ENSRNOT00000104782.1
    Conserved Domains (3) summary
    PRK09287
    Location:14 → 470
    PRK09287; 6-phosphogluconate dehydrogenase; Validated
    pfam00393
    Location:180 → 469
    6PGD; 6-phosphogluconate dehydrogenase, C-terminal domain
    pfam03446
    Location:3 → 176
    NAD_binding_2; NAD binding domain of 6-phosphogluconate dehydrogenase

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

  1. NC_086023.1 Reference GRCr8

    Range
    164865830..164882029 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P85968.1 GenPept UniProtKB/Swiss-Prot:P85968

Gene LinkOut

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