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Atp6v0d2 ATPase, H+ transporting, lysosomal V0 subunit D2 [ Mus musculus (house mouse) ]

Gene ID: 242341, updated on 2-Nov-2024

Summary

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Official Symbol
Atp6v0d2provided by MGI
Official Full Name
ATPase, H+ transporting, lysosomal V0 subunit D2provided by MGI
Primary source
MGI:MGI:1924415
See related
Ensembl:ENSMUSG00000028238 AllianceGenome:MGI:1924415
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
V-ATPase; 1620401A02Rik
Summary
Predicted to enable proton-transporting ATPase activity, rotational mechanism. Predicted to be involved in vacuolar acidification and vacuolar transport. Located in early endosome. Is expressed in several structures, including genitourinary system; limb; musculoskeletal system; respiratory system; and sensory organ. Orthologous to human ATP6V0D2 (ATPase H+ transporting V0 subunit d2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in kidney adult (RPKM 4.2), genital fat pad adult (RPKM 2.8) and 5 other tissues See more
Orthologs
human all
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Genomic context

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See Atp6v0d2 in Genome Data Viewer
Location:
4 A3; 4 7.67 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (19876838..19922566, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (19876838..19922566, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene predicted gene 12354 Neighboring gene STARR-seq mESC enhancer starr_09699 Neighboring gene STARR-seq mESC enhancer starr_09700 Neighboring gene STARR-seq mESC enhancer starr_09702 Neighboring gene solute carrier family 7, (cationic amino acid transporter, y+ system) member 13 Neighboring gene STARR-seq mESC enhancer starr_09703 Neighboring gene RIKEN cDNA 4930480G23 gene Neighboring gene STARR-seq mESC enhancer starr_09704 Neighboring gene STARR-seq mESC enhancer starr_09707 Neighboring gene tocopherol (alpha) transfer protein

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. Upregulation of ATP6V0D2 benefits intracellular survival of Leishmania donovani in erythrocytes-engulfing macrophages. Hong J, et al. Front Cell Infect Microbiol, 2024. PMID 38357442, Free PMC Article
  2. Atp6v0d2 is an essential component of the osteoclast-specific proton pump that mediates extracellular acidification in bone resorption. Wu H, et al. J Bone Miner Res, 2009 May. PMID 19113919, Free PMC Article
  3. Proteomic analysis of osteoclast lipid rafts: the role of the integrity of lipid rafts on V-ATPase activity in osteoclasts. Ryu J, et al. J Bone Miner Metab, 2010 Jul. PMID 20127130
  4. ATP6v0d2 deficiency increases bone mass, but does not influence ovariectomy-induced bone loss. Kim T, et al. Biochem Biophys Res Commun, 2010 Dec 3. PMID 21040703, Free PMC Article
  5. Selective expression of vacuolar H+-ATPase subunit d2 by particular subsets of dendritic cells among leukocytes. Sato K, et al. Mol Immunol, 2006 Mar. PMID 16144709

See all (54) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Glycolysis-Mediated Activation of v-ATPase by Nicotinamide Mononucleotide Ameliorates Lipid-Induced Cardiomyopathy by Repressing the CD36-TLR4 Axis.
    Title: Glycolysis-Mediated Activation of v-ATPase by Nicotinamide Mononucleotide Ameliorates Lipid-Induced Cardiomyopathy by Repressing the CD36-TLR4 Axis.
  2. Upregulation of ATP6V0D2 benefits intracellular survival of Leishmania donovani in erythrocytes-engulfing macrophages.
    Title: Upregulation of ATP6V0D2 benefits intracellular survival of Leishmania donovani in erythrocytes-engulfing macrophages.
  3. Loss of the Golgi-localized v-ATPase subunit does not alter insulin granule formation or pancreatic islet beta-cell function.
    Title: Loss of the Golgi-localized v-ATPase subunit does not alter insulin granule formation or pancreatic islet β-cell function.
  4. Lysosomal dysfunction in Down syndrome and Alzheimer mouse models is caused by v-ATPase inhibition by Tyr[682]-phosphorylated APP betaCTF.
    Title: Lysosomal dysfunction in Down syndrome and Alzheimer mouse models is caused by v-ATPase inhibition by Tyr(682)-phosphorylated APP βCTF.
  5. Leishmania infection-induced multinucleated giant cell formation via upregulation of ATP6V0D2 expression.
    Title: Leishmania infection-induced multinucleated giant cell formation via upregulation of ATP6V0D2 expression.
  6. Inhibiting ATP6V0D2 Aggravates Liver Ischemia-Reperfusion Injury by Promoting NLRP3 Activation via Impairing Autophagic Flux Independent of Notch1/Hes1.
    Title: Inhibiting ATP6V0D2 Aggravates Liver Ischemia-Reperfusion Injury by Promoting NLRP3 Activation via Impairing Autophagic Flux Independent of Notch1/Hes1.
  7. Role of V-ATPase a3-Subunit in Mouse CTL Function.
    Title: Role of V-ATPase a3-Subunit in Mouse CTL Function.
  8. Innate immune responses through Toll-like receptor 3 require human-antigen-R-mediated Atp6v0d2 mRNA stabilization.
    Title: Innate immune responses through Toll-like receptor 3 require human-antigen-R-mediated Atp6v0d2 mRNA stabilization.
  9. Atp6v0d2-deficient macrophages have augmented mitochondrial damage, enhanced inflammasome activation and reduced clearance of Salmonella typhimurium. The susceptibility of atp6v0d2 knockout mice to DSS-induced colitis and Salmonella typhimurium-induced death, highlights the in vivo significance of ATP6V0D2-mediated autophagosome-lysosome fusion.
    Title: The macrophage-specific V-ATPase subunit ATP6V0D2 restricts inflammasome activation and bacterial infection by facilitating autophagosome-lysosome fusion.
  10. The authors identified that ATP6V0d2 mediates leucine-induced mTORC1 activation in macrophages, which further regulates macrophage differentiation.
    Title: ATP6V0d2 mediates leucine-induced mTORC1 activation and polarization of macrophages.
Submit: New GeneRIF Correction See all GeneRIFs (27)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (3) 
  • Targeted (2)  1 citation

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 MGI

Function Evidence Code Pubs
enables proton-transporting ATPase activity, rotational mechanism IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in proton transmembrane transport IEA
Inferred from Electronic Annotation
more info
  
involved_in vacuolar acidification IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in vacuolar transport IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in apical plasma membrane ISO
Inferred from Sequence Orthology
more info
  
located_in apical plasma membrane ISS
Inferred from Sequence or Structural Similarity
more info
  
is_active_in early endosome IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in early endosome IDA
Inferred from Direct Assay
more info
 PubMed 
located_in endosome ISO
Inferred from Sequence Orthology
more info
  
located_in membrane ISO
Inferred from Sequence Orthology
more info
  
part_of plasma membrane proton-transporting V-type ATPase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of proton-transporting V-type ATPase, V0 domain IEA
Inferred from Electronic Annotation
more info
  
part_of vacuolar proton-transporting V-type ATPase complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of vacuolar proton-transporting V-type ATPase complex IEA
Inferred from Electronic Annotation
more info
  
part_of vacuolar proton-transporting V-type ATPase complex ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
V-type proton ATPase subunit d 2
Names
V-ATPase subunit d 2
osteoclast-specific vacuolar ATP synthase
vacuolar proton pump subunit d 2
vacuolar proton-translocating ATPase d subunit d2
NP_780615.2
XP_017175683.1

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_175406.3 → NP_780615.2  V-type proton ATPase subunit d 2

    See identical proteins and their annotated locations for NP_780615.2

    Status: VALIDATED

    Source sequence(s)
    AK075745, AK137586, AY517482
    Consensus CDS
    CCDS17994.1
    UniProtKB/Swiss-Prot
    Q3TDQ6, Q5I0V5, Q80SY3, Q8BTL3, Q8BW16
    Related
    ENSMUSP00000029900.6, ENSMUST00000029900.6
    Conserved Domains (2) summary
    COG1527
    Location:14 → 350
    NtpC; Archaeal/vacuolar-type H+-ATPase subunit C/Vma6 [Energy production and conversion]
    pfam01992
    Location:16 → 338
    vATP-synt_AC39; ATP synthase (C/AC39) subunit

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000070.7 Reference GRCm39 C57BL/6J

    Range
    19876838..19922566 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017320194.3 → XP_017175683.1  V-type proton ATPase subunit d 2 isoform X1

    Conserved Domains (1) summary
    pfam01992
    Location:1 → 234
    vATP-synt_AC39; ATP synthase (C/AC39) subunit
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q80SY3.2 GenPept UniProtKB/Swiss-Prot:Q80SY3

Gene LinkOut

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

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