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Aliases for VPS16 Gene

Aliases for VPS16 Gene

  • Vacuolar Protein Sorting 16 Homolog (S. Cerevisiae) 2 3
  • HVPS16 3 4
  • Vacuolar Protein Sorting-Associated Protein 16 Homolog 3
  • Vacuolar Protein Sorting Protein 16 3

External Ids for VPS16 Gene

Previous GeneCards Identifiers for VPS16 Gene

  • GC20U990060
  • GC20P002769
  • GC20P002817
  • GC20P002818
  • GC20P002821

Summaries for VPS16 Gene

Entrez Gene Summary for VPS16 Gene

  • Vesicle mediated protein sorting plays an important role in segregation of intracellular molecules into distinct organelles. Genetic studies in yeast have identified more than 40 vacuolar protein sorting (VPS) genes involved in vesicle transport to vacuoles. This gene encodes the human homolog of yeast class C Vps16 protein. The mammalian class C Vps proteins are predominantly associated with late endosomes/lysosomes, and like their yeast counterparts, may mediate vesicle trafficking steps in the endosome/lysosome pathway. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2009]

GeneCards Summary for VPS16 Gene

VPS16 (Vacuolar Protein Sorting 16 Homolog (S. Cerevisiae)) is a Protein Coding gene. GO annotations related to this gene include actin filament binding.

UniProtKB/Swiss-Prot for VPS16 Gene

  • May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for VPS16 Gene

Genomics for VPS16 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for VPS16 Gene

Start:
2,840,697 bp from pter
End:
2,866,732 bp from pter
Size:
26,036 bases
Orientation:
Plus strand

Genomic View for VPS16 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for VPS16 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VPS16 Gene

No data available for Regulatory Elements for VPS16 Gene

Proteins for VPS16 Gene

  • Protein details for VPS16 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9H269-VPS16_HUMAN
    Recommended name:
    Vacuolar protein sorting-associated protein 16 homolog
    Protein Accession:
    Q9H269
    Secondary Accessions:
    • Q5JUB1
    • Q8WU31
    • Q96EE7
    • Q96N92
    • Q9H1Q4
    • Q9H1Q5

    Protein attributes for VPS16 Gene

    Size:
    839 amino acids
    Molecular mass:
    94694 Da
    Quaternary structure:
    • Large hetero-oligomeric complex together with VPS11, VPS18 and VPS33A. Interacts with STX7

    Three dimensional structures from OCA and Proteopedia for VPS16 Gene

    Alternative splice isoforms for VPS16 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VPS16 Gene

Proteomics data for VPS16 Gene at MOPED

Post-translational modifications for VPS16 Gene

  • Ubiquitination at Lys58, Lys163, Lys496, Lys510, Lys537, and Lys660
  • Modification sites at PhosphoSitePlus

Other Protein References for VPS16 Gene

No data available for DME Specific Peptides for VPS16 Gene

Domains for VPS16 Gene

Protein Domains for VPS16 Gene

InterPro:
Blocks:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9H269

UniProtKB/Swiss-Prot:

VPS16_HUMAN :
  • Q9H269
Family:
  • Belongs to the VPS16 family.
genes like me logo Genes that share domains with VPS16: view

No data available for Gene Families for VPS16 Gene

Function for VPS16 Gene

Molecular function for VPS16 Gene

UniProtKB/Swiss-Prot Function: May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in membrane docking/fusion reactions of late endosomes/lysosomes

Gene Ontology (GO) - Molecular Function for VPS16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003779 actin binding IBA --
GO:0005515 protein binding --
GO:0051015 actin filament binding IEA --
genes like me logo Genes that share ontologies with VPS16: view

Phenotypes for VPS16 Gene

GenomeRNAi human phenotypes for VPS16:
genes like me logo Genes that share phenotypes with VPS16: view

Animal Model Products

CRISPR Products

miRNA for VPS16 Gene

miRTarBase miRNAs that target VPS16

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VPS16

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for VPS16 Gene

Localization for VPS16 Gene

Subcellular locations from UniProtKB/Swiss-Prot for VPS16 Gene

Late endosome membrane; Peripheral membrane protein; Cytoplasmic side. Lysosome membrane; Peripheral membrane protein; Cytoplasmic side. Note=Cytoplasmic, peripheral membrane protein associated with late endosomes/lysosomes.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VPS16 Gene COMPARTMENTS Subcellular localization image for VPS16 gene
Compartment Confidence
endosome 5
lysosome 5
vacuole 5
cytoskeleton 2
nucleus 2
cytosol 1
mitochondrion 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for VPS16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005737 cytoplasm --
GO:0005764 lysosome IDA 11382755
GO:0005765 lysosomal membrane IDA 17897319
GO:0005768 endosome --
GO:0005769 early endosome IDA 19109425
genes like me logo Genes that share ontologies with VPS16: view

Pathways for VPS16 Gene

SuperPathways for VPS16 Gene

No Data Available

Gene Ontology (GO) - Biological Process for VPS16 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006886 intracellular protein transport IEA --
GO:0007033 vacuole organization IEA --
GO:0016197 endosomal transport IBA --
GO:0032889 regulation of vacuole fusion, non-autophagic IBA --
GO:0035542 regulation of SNARE complex assembly IBA --
genes like me logo Genes that share ontologies with VPS16: view

No data available for Pathways by source for VPS16 Gene

Transcripts for VPS16 Gene

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for VPS16

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for VPS16 Gene

No ASD Table

Relevant External Links for VPS16 Gene

GeneLoc Exon Structure for
VPS16
ECgene alternative splicing isoforms for
VPS16

Expression for VPS16 Gene

mRNA expression in normal human tissues for VPS16 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for VPS16 Gene

mRNA Expression by UniProt/SwissProt for VPS16 Gene

Q9H269-VPS16_HUMAN
Tissue specificity: Ubiquitous
genes like me logo Genes that share expressions with VPS16: view

In Situ Assay Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues for VPS16 Gene

Orthologs for VPS16 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for VPS16 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia VPS16 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia VPS16 35
  • 91.97 (n)
  • 98.09 (a)
VPS16 36
  • 98 (a)
OneToOne
dog
(Canis familiaris)
Mammalia VPS16 35
  • 91.93 (n)
  • 97.85 (a)
VPS16 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vps16 35
  • 89.67 (n)
  • 97.02 (a)
Vps16 16
Vps16 36
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia VPS16 36
  • 88 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia VPS16 36
  • 79 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Vps16 35
  • 89.39 (n)
  • 96.66 (a)
chicken
(Gallus gallus)
Aves VPS16 35
  • 75.86 (n)
  • 77.45 (a)
lizard
(Anolis carolinensis)
Reptilia VPS16 36
  • 72 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia Xl.25398 35
tropical clawed frog
(Silurana tropicalis)
Amphibia vps16 35
  • 67.47 (n)
  • 67.03 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5648 35
zebrafish
(Danio rerio)
Actinopterygii vps16 35
  • 66.71 (n)
  • 67.9 (a)
vps16 36
  • 68 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP000529 35
  • 50.63 (n)
  • 40.05 (a)
fruit fly
(Drosophila melanogaster)
Insecta Vps16A 35
  • 48.79 (n)
  • 36.53 (a)
Vps16A 36
  • 36 (a)
OneToOne
CG8454 37
  • 35 (a)
worm
(Caenorhabditis elegans)
Secernentea vps-16 36
  • 23 (a)
OneToOne
C05D11.2 37
  • 25 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes VPS16 36
  • 23 (a)
OneToOne
thale cress
(Arabidopsis thaliana)
eudicotyledons VCL1 35
  • 46.57 (n)
  • 36.93 (a)
rice
(Oryza sativa)
Liliopsida Os01g0666800 35
  • 44.12 (n)
  • 33.2 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU06268 35
  • 48.67 (n)
  • 38.43 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes vps16 35
  • 43 (n)
  • 32.82 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 42 (a)
OneToOne
Species with no ortholog for VPS16:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VPS16 Gene

ENSEMBL:
Gene Tree for VPS16 (if available)
TreeFam:
Gene Tree for VPS16 (if available)

Paralogs for VPS16 Gene

No data available for Paralogs for VPS16 Gene

Variants for VPS16 Gene

Sequence variations from dbSNP and Humsavar for VPS16 Gene

SNP ID Clin Chr 20 pos Sequence Context AA Info Type MAF
rs873711 -- 2,846,822(+) TCACT(A/G)TTTCC intron-variant
rs1854474 -- 2,855,110(+) CGCAC(G/T)CCACC intron-variant
rs1854475 -- 2,855,118(+) ACCAT(C/G)CCCGG intron-variant
rs2297048 -- 2,860,283(+) GAGGA(A/G)GAGCT synonymous-codon, reference
rs2325971 -- 2,845,831(+) ACTAC(C/T)CTAGA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for VPS16 Gene

Variant ID Type Subtype PubMed ID
nsv833895 CNV Loss 17160897
nsv522009 CNV Gain 19592680
nsv3261 CNV Loss 18451855
esv1548519 CNV Insertion 17803354
nsv518708 CNV Loss 19592680

Relevant External Links for VPS16 Gene

HapMap Linkage Disequilibrium report
VPS16

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for VPS16 Gene

Disorders for VPS16 Gene

(1) University of Copenhagen DISEASES for VPS16 Gene

genes like me logo Genes that share disorders with VPS16: view

No data available for UniProtKB/Swiss-Prot for VPS16 Gene

Publications for VPS16 Gene

  1. Molecular characterization of mammalian homologues of class C Vps proteins that interact with syntaxin-7. (PMID: 11382755) Kim B.Y. … Akazawa C. (J. Biol. Chem. 2001) 3 4 23
  2. Molecular cloning and characterization of human VPS18, VPS11, VPS16, and VPS33. (PMID: 11250079) Huizing M. … Kraemer H. (Gene 2001) 3 4
  3. The DNA sequence and comparative analysis of human chromosome 20. (PMID: 11780052) Deloukas P. … Rogers J. (Nature 2001) 3 4
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for VPS16 Gene

Sources for VPS16 Gene

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