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

    Gene ID: 641434, updated on 11-Apr-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
    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
    • 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 TAS
    Traceable Author Statement
    more info
    		 PubMed 
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of mitochondrial proton-transporting ATP synthase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of mitochondrial proton-transporting ATP synthase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of mitochondrial proton-transporting ATP synthase complex, coupling factor F(o) IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of mitochondrial proton-transporting ATP synthase, stator stalk IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    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
      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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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