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    Atp6v1d ATPase, H+ transporting, lysosomal V1 subunit D [ Mus musculus (house mouse) ]

    Gene ID: 73834, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Atp6v1dprovided by MGI
    Official Full Name
    ATPase, H+ transporting, lysosomal V1 subunit Dprovided by MGI
    Primary source
    MGI:MGI:1921084
    See related
    Ensembl:ENSMUSG00000021114 AllianceGenome:MGI:1921084
    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
    VATD; Vma8; Atp6m; 1110004P10Rik
    Summary
    Predicted to enable proton-transporting ATPase activity, rotational mechanism. Involved in synaptic vesicle lumen acidification. Part of proton-transporting V-type ATPase complex. Is expressed in several structures, including alimentary system; central nervous system; genitourinary system; integumental system; and sensory organ. Orthologous to human ATP6V1D (ATPase H+ transporting V1 subunit D). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in cortex adult (RPKM 56.2), frontal lobe adult (RPKM 53.1) and 22 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Atp6v1d in Genome Data Viewer
    Location:
    12 C3; 12 35.51 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 12 NC_000078.7 (78889756..78908810, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 12 NC_000078.6 (78842982..78862008, complement)

    Chromosome 12 - NC_000078.7Genomic Context describing neighboring genes Neighboring gene golgi associated RAB2 interactor 2 Neighboring gene STARR-positive B cell enhancer ABC_E10759 Neighboring gene protein associated with LIN7 1, MAGUK family member Neighboring gene STARR-seq mESC enhancer starr_32577 Neighboring gene STARR-seq mESC enhancer starr_32578 Neighboring gene eukaryotic translation initiation factor 2, subunit 1 alpha Neighboring gene pleckstrin 2

    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
    • 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. cDNA cloning, chromosomal localization and evolutionary analysis of mouse vacuolar ATPase subunit D, Atp6m. Kennell JA, et al. Cytogenet Cell Genet, 2001. PMID 11435709
    2. Extra-renal locations of the a4 subunit of H(+)ATPase. Golder ZJ, et al. BMC Cell Biol, 2016 Jul 2. PMID 27368196, Free PMC Article
    3. The d subunit plays a central role in human vacuolar H(+)-ATPases. Smith AN, et al. J Bioenerg Biomembr, 2008 Aug. PMID 18752060, Free PMC Article
    4. The Presynaptic v-ATPase Reversibly Disassembles and Thereby Modulates Exocytosis but Is Not Part of the Fusion Machinery. Bodzęta A, et al. Cell Rep, 2017 Aug 8. PMID 28793259
    5. Diversity of mouse proton-translocating ATPase: presence of multiple isoforms of the C, d and G subunits. Sun-Wada GH, et al. Gene, 2003 Jan 2. PMID 12527205

    See all (36) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

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

    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 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 cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cilium assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in protein localization to cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to cilium ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in synaptic vesicle lumen acidification EXP
    Inferred from Experiment
    more info
    		 PubMed 
    involved_in synaptic vesicle lumen acidification IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in synaptic vesicle lumen acidification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of ATPase complex ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    colocalizes_with centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with centrosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    colocalizes_with cilium ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with cilium ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in clathrin-coated vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in extrinsic component of synaptic vesicle membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extrinsic component of synaptic vesicle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of proton-transporting V-type ATPase complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of proton-transporting V-type ATPase complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    part_of proton-transporting V-type ATPase complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of proton-transporting V-type ATPase, V1 domain ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    part_of vacuolar proton-transporting V-type ATPase, V1 domain ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    V-type proton ATPase subunit D
    Names
    ATPase, H+ transporting lysosomal (vacuolar proton pump)
    ATPase, H+ transporting, V1 subunit D
    ATPase, H+ transporting, lysosomal 34kD, V1 subunit D
    V-ATPase 28 kDa accessory protein
    V-ATPase subunit D
    lysosomal 34kDa
    vacuolar proton pump subunit D
    NP_076210.1
    XP_030102816.1
    XP_036013525.1

    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_023721.2 → NP_076210.1  V-type proton ATPase subunit D

      See identical proteins and their annotated locations for NP_076210.1

      Status: VALIDATED

      Source sequence(s)
      AK147910, BY096594
      Consensus CDS
      CCDS26002.1
      UniProtKB/Swiss-Prot
      P57746
      UniProtKB/TrEMBL
      Q3U684, Q3U861, Q3UJH5
      Related
      ENSMUSP00000021536.8, ENSMUST00000021536.9
      Conserved Domains (1) summary
      pfam01813
      Location:17 → 202
      ATP-synt_D; ATP synthase subunit D

    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_000078.7 Reference GRCm39 C57BL/6J

      Range
      78889756..78908810 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157632.1 → XP_036013525.1  V-type proton ATPase subunit D isoform X2

      UniProtKB/TrEMBL
      Q3U684, Q3UJH5
      Conserved Domains (1) summary
      pfam01813
      Location:1 → 184
      ATP-synt_D; ATP synthase subunit D

    2. XM_030246956.2 → XP_030102816.1  V-type proton ATPase subunit D isoform X1

      UniProtKB/Swiss-Prot
      P57746
      UniProtKB/TrEMBL
      Q3U684, Q3U861, Q3UJH5
      Conserved Domains (1) summary
      pfam01813
      Location:17 → 202
      ATP-synt_D; ATP synthase subunit D
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P57746.1 GenPept UniProtKB/Swiss-Prot:P57746

    Gene LinkOut

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

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