Pgd phosphogluconate dehydrogenase [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pgdprovided by RGD
Official Full Name: phosphogluconate dehydrogenaseprovided by RGD
Primary source: RGD:1583832
See related: EnsemblRapid:ENSRNOG00000076812 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. Predicted to be located in several cellular components, including cytoplasmic vesicle; microtubule; and neuron projection. Predicted to be part of FANCM-MHF complex. Predicted to be active in cytosol. Orthologous to human PGD (phosphogluconate dehydrogenase). [provided by Alliance of Genome Resources, Nov 2024]
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

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_086023.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
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.
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

General gene information

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Markers

RH138086 (e-PCR)
- UniSTS:220173

RH132033 (e-PCR)
- UniSTS:215316

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 plus-end-directed microtubule motor activity	IEA Inferred from Electronic Annotation 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 D-gluconate metabolic process	IEA Inferred from Electronic Annotation more info
involved_in NADP metabolic process	IDA Inferred from Direct Assay more info	PubMed
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	IEA Inferred from Electronic Annotation more info
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
involved_in vesicle transport along microtubule	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of FANCM-MHF complex	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 neuron projection	IEA Inferred from Electronic Annotation more info
located_in synapse	IEA Inferred from Electronic Annotation more info
located_in transport vesicle membrane	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

EC 1.1.1.44

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)

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, ENSRNOT00000104782.2

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