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

Gene ID: 73834, updated on 28-Oct-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, Oct 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 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

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