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Vps4b vacuolar protein sorting 4B [ Mus musculus (house mouse) ]

Gene ID: 20479, updated on 8-Feb-2024

Summary

Official Symbol
Vps4bprovided by MGI
Official Full Name
vacuolar protein sorting 4Bprovided by MGI
Primary source
MGI:MGI:1100499
See related
Ensembl:ENSMUSG00000009907 AllianceGenome:MGI:1100499
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
Skd1; 8030489C12Rik
Summary
Predicted to enable ATP hydrolysis activity; protein C-terminus binding activity; and protein homodimerization activity. Involved in late endosomal microautophagy; multivesicular body assembly; and viral budding from plasma membrane. Acts upstream of or within cholesterol transport; endosome organization; and potassium ion transport. Located in cytosol. Orthologous to human VPS4B (vacuolar protein sorting 4 homolog B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bladder adult (RPKM 17.1), placenta adult (RPKM 16.0) and 28 other tissues See more
Orthologs
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Genomic context

See Vps4b in Genome Data Viewer
Location:
1 E2.1; 1 50.1 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (106698518..106724455, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (106770788..106796725, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene B cell leukemia/lymphoma 2 Neighboring gene STARR-positive B cell enhancer mm9_chr1:108516642-108516943 Neighboring gene STARR-seq mESC enhancer starr_01860 Neighboring gene predicted gene, 37053 Neighboring gene 3-ketodihydrosphingosine reductase Neighboring gene STARR-positive B cell enhancer ABC_E4341 Neighboring gene STARR-positive B cell enhancer ABC_E3296 Neighboring gene STARR-positive B cell enhancer ABC_E10027 Neighboring gene predicted gene, 53577 Neighboring gene STARR-seq mESC enhancer starr_01863 Neighboring gene STARR-seq mESC enhancer starr_01864 Neighboring gene serine (or cysteine) peptidase inhibitor, clade B, member 5 Neighboring gene POU domain, class 2, transcription factor 3, related sequence 1

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables ATP hydrolysis activity ISO
Inferred from Sequence Orthology
more info
PubMed 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables nucleotide binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in ESCRT III complex disassembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within angiogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in autophagosome maturation NAS
Non-traceable Author Statement
more info
PubMed 
involved_in autophagy NAS
Non-traceable Author Statement
more info
PubMed 
acts_upstream_of_or_within canonical Wnt signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cell cycle IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell division IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within central nervous system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within cholesterol transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endosomal transport IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within endosomal transport ISO
Inferred from Sequence Orthology
more info
PubMed 
acts_upstream_of_or_within endosome organization IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within endosome organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in endosome to lysosome transport via multivesicular body sorting pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within establishment of blood-brain barrier IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in late endosomal microautophagy IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in late endosome to lysosome transport via multivesicular body sorting pathway NAS
Non-traceable Author Statement
more info
PubMed 
involved_in membrane fission NAS
Non-traceable Author Statement
more info
PubMed 
involved_in midbody abscission ISO
Inferred from Sequence Orthology
more info
 
involved_in midbody abscission NAS
Non-traceable Author Statement
more info
PubMed 
involved_in mitotic metaphase chromosome alignment ISO
Inferred from Sequence Orthology
more info
 
involved_in multivesicular body assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in multivesicular body assembly NAS
Non-traceable Author Statement
more info
PubMed 
involved_in multivesicular body sorting pathway NAS
Non-traceable Author Statement
more info
PubMed 
involved_in negative regulation of exosomal secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in nuclear membrane reassembly NAS
Non-traceable Author Statement
more info
PubMed 
involved_in nucleus organization ISO
Inferred from Sequence Orthology
more info
 
involved_in nucleus organization NAS
Non-traceable Author Statement
more info
PubMed 
involved_in plasma membrane repair NAS
Non-traceable Author Statement
more info
PubMed 
involved_in positive regulation of G2/M transition of mitotic cell cycle ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of centriole elongation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of exosomal secretion ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within potassium ion transport IDA
Inferred from Direct Assay
more info
PubMed 
involved_in protein depolymerization ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of centrosome duplication ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mitotic spindle assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in response to lipid ISO
Inferred from Sequence Orthology
more info
 
involved_in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in ubiquitin-independent protein catabolic process via the multivesicular body sorting pathway ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within vacuolar transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in vacuole organization IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in viral budding from plasma membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in viral budding from plasma membrane ISO
Inferred from Sequence Orthology
more info
 
involved_in viral budding via host ESCRT complex ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of ATPase complex NAS
Non-traceable Author Statement
more info
PubMed 
located_in Flemming body ISO
Inferred from Sequence Orthology
more info
 
located_in centrosome ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in endosome ISO
Inferred from Sequence Orthology
more info
PubMed 
located_in endosome membrane ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in midbody NAS
Non-traceable Author Statement
more info
PubMed 
part_of nuclear pore NAS
Non-traceable Author Statement
more info
PubMed 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane NAS
Non-traceable Author Statement
more info
PubMed 
located_in spindle pole ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
vacuolar protein sorting-associated protein 4B
Names
suppressor of K(+) transport growth defect 1
suppressor of K+ transport defect 1
NP_033216.2

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_009190.2NP_033216.2  vacuolar protein sorting-associated protein 4B

    See identical proteins and their annotated locations for NP_033216.2

    Status: VALIDATED

    Source sequence(s)
    AK034641, AK151023, BY126089
    Consensus CDS
    CCDS15211.1
    UniProtKB/Swiss-Prot
    P46467, Q91W22, Q9R1C9
    UniProtKB/TrEMBL
    Q3TN07, Q3U8P5
    Related
    ENSMUSP00000092230.6, ENSMUST00000094646.6
    Conserved Domains (4) summary
    cd02678
    Location:769
    MIT_VPS4; MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
    pfam09336
    Location:381441
    Vps4_C; Vps4 C terminal oligomerization domain
    pfam17862
    Location:325366
    AAA_lid_3; AAA+ lid domain
    cd19521
    Location:128298
    RecA-like_VPS4; ATPase domain of vacuolar protein sorting-associated protein 4

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_000067.7 Reference GRCm39 C57BL/6J

    Range
    106698518..106724455 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)