Human Gene ATP6V0B (ENST00000472174.7_4) from GENCODE V47lift37

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Description: ATPase H+ transporting V0 subunit b, transcript variant 1 (from RefSeq NM_004047.5)
Gencode Transcript: ENST00000472174.7_4
Gencode Gene: ENSG00000117410.14_8
Transcript (Including UTRs)
Position: hg19 chr1:44,440,632-44,443,967 Size: 3,336 Total Exon Count: 8 Strand: +
Coding Region
Position: hg19 chr1:44,440,713-44,443,679 Size: 2,967 Coding Exon Count: 8

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr1:44,440,632-44,443,967)			mRNA (may differ from genome)		Protein (205 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: VATO_HUMAN DESCRIPTION: RecName: Full=V-type proton ATPase 21 kDa proteolipid subunit; Short=V-ATPase 21 kDa proteolipid subunit; AltName: Full=Vacuolar proton pump 21 kDa proteolipid subunit; AltName: Full=hATPL; FUNCTION: Proton-conducting pore forming subunit of the membrane integral V0 complex of vacuolar ATPase. V-ATPase is responsible for acidifying a variety of intracellular compartments in eukaryotic cells. SUBUNIT: Interacts with IFITM3 (By similarity). SUBCELLULAR LOCATION: Vacuole membrane; Multi-pass membrane protein. TISSUE SPECIFICITY: Ubiquitous. SIMILARITY: Belongs to the V-ATPase proteolipid subunit family.

Primer design for this transcript

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
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To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3

MalaCards Disease Associations


	MalaCards Gene Search: ATP6V0B Diseases sorted by gene-association score: lymphocytic choriomeningitis (6)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene D016572 Cyclosporine C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II) D000082 Acetaminophen D001241 Aspirin D001564 Benzo(a)pyrene D019256 Cadmium Chloride D002994 Clofibrate D060729 Coal Ash D019327 Copper Sulfate D003993 Dibutyl Phthalate more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 98.57 RPKM in Whole Blood Total median expression: 1740.88 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-39.80	81	-0.491	Picture	PostScript	Text
3' UTR	-104.00	288	-0.361	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR002379 - ATPase_F0/V0-cplx_csu
IPR000245 - ATPase_V0-cplx_csu

Pfam Domains:
PF00137 - ATP synthase subunit C

SCOP Domains:
81333 - F1F0 ATP synthase subunit C

ModBase Predicted Comparative 3D Structure on Q99437


Front	Top	Side

The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details		Gene Details
Gene Sorter	Gene Sorter		Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005215 transporter activity GO:0015078 hydrogen ion transmembrane transporter activity GO:0046961 proton-transporting ATPase activity, rotational mechanism Biological Process: GO:0006811 ion transport GO:0007035 vacuolar acidification GO:0008286 insulin receptor signaling pathway GO:0015991 ATP hydrolysis coupled proton transport GO:0016241 regulation of macroautophagy GO:0033572 transferrin transport GO:0034220 ion transmembrane transport GO:1902600 hydrogen ion transmembrane transport Cellular Component: GO:0000220 vacuolar proton-transporting V-type ATPase, V0 domain GO:0005773 vacuole GO:0005774 vacuolar membrane GO:0010008 endosome membrane GO:0016020 membrane GO:0016021 integral component of membrane GO:0030670 phagocytic vesicle membrane GO:0033177 proton-transporting two-sector ATPase complex, proton-transporting domain GO:0033179 proton-transporting V-type ATPase, V0 domain

Descriptions from all associated GenBank mRNAs


	LF206579 - JP 2014500723-A/14082: Polycomb-Associated Non-Coding RNAs. D89052 - Homo sapiens mRNA for proton-ATPase-like protein, complete cds. BD062195 - Gene diagnostic agent/gene therapeutic agent of tumor using tumor specific antigen and novel application of proton pump inhibitor as antitumor drug. JD021099 - Sequence 2123 from Patent EP1572962. JD021596 - Sequence 2620 from Patent EP1572962. JD021597 - Sequence 2621 from Patent EP1572962. BC053601 - Homo sapiens ATPase, H+ transporting, lysosomal 21kDa, V0 subunit b, mRNA (cDNA clone IMAGE:5767662), with apparent retained intron. BC042664 - Homo sapiens ATPase, H+ transporting, lysosomal 21kDa, V0 subunit b, mRNA (cDNA clone IMAGE:5180100), with apparent retained intron. BC000423 - Homo sapiens ATPase, H+ transporting, lysosomal 21kDa, V0 subunit b, mRNA (cDNA clone MGC:8673 IMAGE:2964510), complete cds. BC005876 - Homo sapiens ATPase, H+ transporting, lysosomal 21kDa, V0 subunit b, mRNA (cDNA clone MGC:4498 IMAGE:2964510), complete cds. JD029738 - Sequence 10762 from Patent EP1572962. LF356331 - JP 2014500723-A/163834: Polycomb-Associated Non-Coding RNAs. KJ890744 - Synthetic construct Homo sapiens clone ccsbBroadEn_00138 ATP6V0B gene, encodes complete protein. CR456972 - Homo sapiens full open reading frame cDNA clone RZPDo834C025D for gene ATP6V0B, ATPase, H+ transporting, lysosomal 21kDa, V0 subunit c''; complete cds, incl. stopcodon. BT007151 - Homo sapiens ATPase, H+ transporting, lysosomal 21kDa, V0 subunit c'' mRNA, complete cds. JD019798 - Sequence 822 from Patent EP1572962. JD035825 - Sequence 16849 from Patent EP1572962. HV451371 - WO 2000020442-A/2: Tumor specific antigen peptide. LF206577 - JP 2014500723-A/14080: Polycomb-Associated Non-Coding RNAs. JD020924 - Sequence 1948 from Patent EP1572962. JD036308 - Sequence 17332 from Patent EP1572962. JD022999 - Sequence 4023 from Patent EP1572962. JD023000 - Sequence 4024 from Patent EP1572962. JD029807 - Sequence 10831 from Patent EP1572962. JD035824 - Sequence 16848 from Patent EP1572962. LF356327 - JP 2014500723-A/163830: Polycomb-Associated Non-Coding RNAs. L05089 - Homo sapiens ATPase homolog mRNA, partial cds. JD490437 - Sequence 471461 from Patent EP1572962. JD210846 - Sequence 191870 from Patent EP1572962. JD392618 - Sequence 373642 from Patent EP1572962. JD200593 - Sequence 181617 from Patent EP1572962. JD081435 - Sequence 62459 from Patent EP1572962. JD424077 - Sequence 405101 from Patent EP1572962. JD424078 - Sequence 405102 from Patent EP1572962. JD174346 - Sequence 155370 from Patent EP1572962. JD338805 - Sequence 319829 from Patent EP1572962. JD427710 - Sequence 408734 from Patent EP1572962. JD124444 - Sequence 105468 from Patent EP1572962. JD123357 - Sequence 104381 from Patent EP1572962. JD095106 - Sequence 76130 from Patent EP1572962. LF356324 - JP 2014500723-A/163827: Polycomb-Associated Non-Coding RNAs. MA442156 - JP 2018138019-A/14082: Polycomb-Associated Non-Coding RNAs. MA591908 - JP 2018138019-A/163834: Polycomb-Associated Non-Coding RNAs. MA442154 - JP 2018138019-A/14080: Polycomb-Associated Non-Coding RNAs. MA591904 - JP 2018138019-A/163830: Polycomb-Associated Non-Coding RNAs. MA591901 - JP 2018138019-A/163827: Polycomb-Associated Non-Coding RNAs.

Biochemical and Signaling Pathways


	BioCyc Knowledge Library PWY-7980 - ATP biosynthesis Reactome (by CSHL, EBI, and GO) Protein Q99437 (Reactome details) participates in the following event(s): R-HSA-5252133 ATP6AP1 binds V-ATPase R-HSA-1222516 Intraphagosomal pH is lowered to 5 by V-ATPase R-HSA-74723 Endosome acidification R-HSA-917841 Acidification of Tf:TfR1 containing endosome R-HSA-77387 Insulin receptor recycling R-HSA-917977 Transferrin endocytosis and recycling R-HSA-983712 Ion channel transport R-HSA-74752 Signaling by Insulin receptor R-HSA-917937 Iron uptake and transport R-HSA-382551 Transport of small molecules R-HSA-1222556 ROS, RNS production in phagocytes R-HSA-9006934 Signaling by Receptor Tyrosine Kinases R-HSA-168249 Innate Immune System R-HSA-162582 Signal Transduction R-HSA-168256 Immune System

Other Names for This Gene


	Alternate Gene Symbols: ATP6F, D3DPY5, ENST00000472174.1, ENST00000472174.2, ENST00000472174.3, ENST00000472174.4, ENST00000472174.5, ENST00000472174.6, NM_004047, Q6IB32, Q99437, uc321pnu.1, uc321pnu.2, VATO_HUMAN UCSC ID: ENST00000472174.7_4 RefSeq Accession: NM_004047.5 Protein: Q99437 (aka VATO_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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