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Atp5pd ATP synthase peripheral stalk subunit d [ Rattus norvegicus (Norway rat) ]

Gene ID: 641434, updated on 18-Sep-2024

Summary

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Official Symbol
Atp5pdprovided by RGD
Official Full Name
ATP synthase peripheral stalk subunit dprovided by RGD
Primary source
RGD:620083
See related
EnsemblRapid:ENSRNOG00000003626 AllianceGenome:RGD:620083
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Atpq; Atp5h; Atp5jd
Summary
Predicted to enable proton transmembrane transporter activity. Predicted to contribute to proton-transporting ATP synthase activity, rotational mechanism. Involved in ATP metabolic process and cellular response to peptide. Part of mitochondrial proton-transporting ATP synthase complex, coupling factor F(o). Used to study mental depression. Biomarker of congenital hypothyroidism. Orthologous to human ATP5PD (ATP synthase peripheral stalk subunit d). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Heart (RPKM 4563.1), Muscle (RPKM 3028.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Atp5pd in Genome Data Viewer
Location:
10q32.1
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (101156673..101161926, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (100657700..100662960, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (103967340..103972552, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene transfer RNA arginine (anticodon CCU) 8 Neighboring gene transfer RNA arginine (anticodon UCG) 2 Neighboring gene potassium channel tetramerization domain containing 2 Neighboring gene tripartite motif protein 80

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 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. Mechanisms of propofol attenuation of ketamine-induced neonatal brain injury. Zhao CH, et al. Eur Rev Med Pharmacol Sci, 2016. PMID 26813465
  2. Differential proteomic analysis of the anti-depressive effects of oleamide in a rat chronic mild stress model of depression. Ge L, et al. Pharmacol Biochem Behav, 2015 Apr. PMID 25641667
  3. cDNA cloning for and preparation of antibodies against subunit d of H(+)-ATP synthase in rat mitochondria. Motojima K, et al. Biochem Biophys Res Commun, 1992 Feb 14. PMID 1531750
  4. Marine collagen peptides reduce endothelial cell injury in diabetic rats by inhibiting apoptosis and the expression of coupling factor 6 and microparticles. Zhu C, et al. Mol Med Rep, 2017 Oct. PMID 28731155, Free PMC Article
  5. Coupling Factor 6 Is Upregulated in Monocrotaline-induced Pulmonary Arterial Hypertension in Rats. Li N, et al. Am J Med Sci, 2016 Dec. PMID 27916219

See all (27) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. the deltaPKC-dF1Fo inhibitor attenuated co-immunoprecipitation of deltaPKC with dF1Fo.
    Title: δPKC interaction with the d subunit of F1Fo ATP synthase impairs energetics and exacerbates ischemia/reperfusion injury in isolated rat hearts.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables proton transmembrane transporter activity IEA
Inferred from Electronic Annotation
more info
  
contributes_to proton-transporting ATP synthase activity, rotational mechanism IBA
Inferred from Biological aspect of Ancestor
more info
  
contributes_to proton-transporting ATP synthase activity, rotational mechanism ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in cellular response to peptide IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in proton motive force-driven ATP synthesis IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in proton motive force-driven ATP synthesis IEA
Inferred from Electronic Annotation
more info
  
involved_in proton motive force-driven mitochondrial ATP synthesis ISO
Inferred from Sequence Orthology
more info
  
involved_in proton transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
located_in mitochondrial inner membrane IEA
Inferred from Electronic Annotation
more info
  
located_in mitochondrial inner membrane ISO
Inferred from Sequence Orthology
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
part_of proton-transporting ATP synthase complex IDA
Inferred from Direct Assay
more info
 PubMed 
part_of proton-transporting ATP synthase complex ISO
Inferred from Sequence Orthology
more info
  
part_of proton-transporting ATP synthase complex, coupling factor F(o) IDA
Inferred from Direct Assay
more info
 PubMed 
part_of proton-transporting ATP synthase complex, coupling factor F(o) IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
ATP synthase subunit d, mitochondrial
Names
ATP synthase, H+ transporting, mitochondrial F0 complex, subunit d
ATP synthase, H+ transporting, mitochondrial Fo complex, subunit d
ATPase subunit d
NP_062256.1
XP_008766612.1
XP_038942713.1

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_019383.2 → NP_062256.1  ATP synthase subunit d, mitochondrial

    See identical proteins and their annotated locations for NP_062256.1

    Status: REVIEWED

    Source sequence(s)
    BC059139, BC078846
    UniProtKB/Swiss-Prot
    P31399
    UniProtKB/TrEMBL
    A6HKM3, A6HKM5
    Related
    ENSRNOP00000105039.1, ENSRNOT00000130272.1
    Conserved Domains (1) summary
    pfam05873
    Location:3 → 155
    Mt_ATP-synt_D; ATP synthase D chain, mitochondrial (ATP5H)

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_086028.1 Reference GRCr8

    Range
    101156673..101161926 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008768390.4 → XP_008766612.1  ATP synthase subunit d, mitochondrial isoform X2

    See identical proteins and their annotated locations for XP_008766612.1

    UniProtKB/TrEMBL
    A6HKM2
    Conserved Domains (1) summary
    pfam05873
    Location:11 → 135
    Mt_ATP-synt_D; ATP synthase D chain, mitochondrial (ATP5H)

  2. XM_039086785.2 → XP_038942713.1  ATP synthase subunit d, mitochondrial isoform X1

    UniProtKB/Swiss-Prot
    P31399
    UniProtKB/TrEMBL
    A6HKM3, A6HKM5
    Conserved Domains (1) summary
    pfam05873
    Location:3 → 155
    Mt_ATP-synt_D; ATP synthase D chain, mitochondrial (ATP5H)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P31399.3 GenPept UniProtKB/Swiss-Prot:P31399

Gene LinkOut

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