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Aliases for VAPA Gene

Aliases for VAPA Gene

  • VAMP Associated Protein A 2 3 5
  • VAMP (Vesicle-Associated Membrane Protein)-Associated Protein A, 33kDa 2 3
  • 33 KDa VAMP-Associated Protein 3 4
  • VAMP-Associated Protein A 3 4
  • VAMP-A 3 4
  • VAP-33 3 4
  • VAP-A 3 4
  • VAP33 3 4
  • VAMP (Vesicle-Associated Membrane Protein)-Associated Protein A (33kD) 2
  • HVAP-33 3

External Ids for VAPA Gene

Previous GeneCards Identifiers for VAPA Gene

  • GC18P010047
  • GC18P009903

Summaries for VAPA Gene

Entrez Gene Summary for VAPA Gene

  • The protein encoded by this gene is a type IV membrane protein. It is present in the plasma membrane and intracellular vesicles. It may also be associated with the cytoskeleton. This protein may function in vesicle trafficking, membrane fusion, protein complex assembly and cell motility. Alternative splicing occurs at this locus and two transcript variants encoding distinct isoforms have been identified. [provided by RefSeq, Jul 2008]

GeneCards Summary for VAPA Gene

VAPA (VAMP Associated Protein A) is a Protein Coding gene. Diseases associated with VAPA include botulism and chief cell adenoma. Among its related pathways are Tight junction and Sertoli-Sertoli Cell Junction Dynamics. GO annotations related to this gene include protein heterodimerization activity and structural molecule activity. An important paralog of this gene is VAPB.

UniProtKB/Swiss-Prot for VAPA Gene

  • Binds to OSBPL3, which mediates recruitment of VAPA to plasma membrane sites (PubMed:25447204). The ORP3-VAPA complex stimulates RRAS signaling which in turn attenuates integrin beta-1 (ITGB1) activation at the cell surface (PubMed:25447204). With OSBPL3, may regulate ER morphology (PubMed:16143324). May play a role in vesicle trafficking (PubMed:11511104, PubMed:19289470).

Gene Wiki entry for VAPA Gene

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

Genomics for VAPA Gene

Regulatory Elements for VAPA Gene

Enhancers for VAPA Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around VAPA on UCSC Golden Path with GeneCards custom track

Promoters for VAPA Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around VAPA on UCSC Golden Path with GeneCards custom track

Genomic Location for VAPA Gene

Chromosome:
18
Start:
9,913,958 bp from pter
End:
9,960,021 bp from pter
Size:
46,064 bases
Orientation:
Plus strand

Genomic View for VAPA Gene

Genes around VAPA on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
VAPA Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for VAPA Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for VAPA Gene

Proteins for VAPA Gene

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

    Protein Symbol:
    Q9P0L0-VAPA_HUMAN
    Recommended name:
    Vesicle-associated membrane protein-associated protein A
    Protein Accession:
    Q9P0L0
    Secondary Accessions:
    • A6NDZ0
    • D3DUI3
    • O75453
    • Q5U0E7
    • Q9UBZ2

    Protein attributes for VAPA Gene

    Size:
    249 amino acids
    Molecular mass:
    27893 Da
    Quaternary structure:
    • Homodimer, and heterodimer with VAPB (PubMed:11511104). Interacts with VAMP1, VAMP2, STX1A, BET1, SEC22C and with the C-terminal domain of OCLN (PubMed:11511104, PubMed:9657962, PubMed:10523508). Interacts with OSBPL1A (By similarity). Interacts (via MSP domain) with ZFYVE27; may retain ZFYVE27 in the endoplasmic reticulum and regulate its function in cell projections formation (PubMed:19289470). Interacts with OSBP (PubMed:20178991). Interacts (via C-terminus) with RSAD2/viperin (via C-terminus) (PubMed:21957124). Interacts with HCV protein NS5A and NS5B (PubMed:21957124). Interacts with IFITM3 (PubMed:23601107). Interacts with OSBPL3 (phosphorylated form) (PubMed:16143324, PubMed:25447204).
    SequenceCaution:
    • Sequence=AAD09742.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAF72105.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BG488667; Type=Frameshift; Positions=72, 207, 241; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for VAPA Gene

    Alternative splice isoforms for VAPA Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for VAPA Gene

Proteomics data for VAPA Gene at MOPED

Post-translational modifications for VAPA Gene

  • Ubiquitination at Lys 10, Lys 146, and Lys 154
  • Modification sites at PhosphoSitePlus

Other Protein References for VAPA Gene

Antibody Products

No data available for DME Specific Peptides for VAPA Gene

Domains & Families for VAPA Gene

Protein Domains for VAPA Gene

Suggested Antigen Peptide Sequences for VAPA Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q9P0L0

UniProtKB/Swiss-Prot:

VAPA_HUMAN :
  • Contains 1 MSP domain.
  • Belongs to the VAMP-associated protein (VAP) (TC 9.B.17) family.
Domain:
  • Contains 1 MSP domain.
Family:
  • Belongs to the VAMP-associated protein (VAP) (TC 9.B.17) family.
genes like me logo Genes that share domains with VAPA: view

No data available for Gene Families for VAPA Gene

Function for VAPA Gene

Molecular function for VAPA Gene

UniProtKB/Swiss-Prot Function:
Binds to OSBPL3, which mediates recruitment of VAPA to plasma membrane sites (PubMed:25447204). The ORP3-VAPA complex stimulates RRAS signaling which in turn attenuates integrin beta-1 (ITGB1) activation at the cell surface (PubMed:25447204). With OSBPL3, may regulate ER morphology (PubMed:16143324). May play a role in vesicle trafficking (PubMed:11511104, PubMed:19289470).
genes like me logo Genes that share phenotypes with VAPA: view

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for VAPA Gene

Localization for VAPA Gene

Subcellular locations from UniProtKB/Swiss-Prot for VAPA Gene

Endoplasmic reticulum membrane; Single-pass type IV membrane protein. Cell membrane; Single-pass type IV membrane protein. Cell junction, tight junction. Note=Present in the plasma membrane and in intracellular vesicles, together with SNARE proteins. May also associate with the cytoskeleton. Colocalizes with OCLN at the tight junction in polarized epithelial cells. {ECO:0000269 PubMed:10523508}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for VAPA Gene COMPARTMENTS Subcellular localization image for VAPA gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 5
golgi apparatus 4
cytoskeleton 3
cytosol 3
endosome 1
lysosome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for VAPA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA,IDA 16791210
GO:0015630 microtubule cytoskeleton IEA --
genes like me logo Genes that share ontologies with VAPA: view

Pathways & Interactions for VAPA Gene

genes like me logo Genes that share pathways with VAPA: view

Pathways by source for VAPA Gene

1 KEGG pathway for VAPA Gene
1 Qiagen pathway for VAPA Gene

Gene Ontology (GO) - Biological Process for VAPA Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007165 signal transduction IMP 12761501
GO:0008219 cell death IMP 19289470
GO:0030148 sphingolipid biosynthetic process TAS --
GO:0044281 small molecule metabolic process TAS --
GO:0044791 positive regulation by host of viral release from host cell IDA 19515777
genes like me logo Genes that share ontologies with VAPA: view

No data available for SIGNOR curated interactions for VAPA Gene

Drugs & Compounds for VAPA Gene

(1) Drugs for VAPA Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials

(1) Additional Compounds for VAPA Gene - From: Novoseek

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
genes like me logo Genes that share compounds with VAPA: view

Transcripts for VAPA Gene

Unigene Clusters for VAPA Gene

VAMP (vesicle-associated membrane protein)-associated protein A, 33kDa:
Representative Sequences:

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

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4a · 4b · 4c ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c · 9d
SP1: - - - - - -
SP2: - - - - -
SP3: - - - - -
SP4: - - -
SP5: - - -
SP6: - - - -
SP7:
SP8: - - -

Relevant External Links for VAPA Gene

GeneLoc Exon Structure for
VAPA
ECgene alternative splicing isoforms for
VAPA

Expression for VAPA Gene

mRNA expression in normal human tissues for VAPA Gene

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for VAPA Gene



SOURCE GeneReport for Unigene cluster for VAPA Gene Hs.165195

mRNA Expression by UniProt/SwissProt for VAPA Gene

Q9P0L0-VAPA_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with VAPA: view

Protein tissue co-expression partners for VAPA Gene

Primer Products

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

Orthologs for VAPA Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for VAPA Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia VAPA 35
  • 88.49 (n)
  • 95.18 (a)
VAPA 36
  • 95 (a)
OneToOne
dog
(Canis familiaris)
Mammalia VAPA 35
  • 94.51 (n)
  • 98.39 (a)
VAPA 36
  • 91 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Vapa 35
  • 93.71 (n)
  • 97.19 (a)
Vapa 16
Vapa 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia VAPA 35
  • 99.77 (n)
  • 100 (a)
VAPA 36
  • 100 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Vapa 35
  • 91.83 (n)
  • 96.79 (a)
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 80 (a)
OneToMany
-- 36
  • 76 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia VAPA 36
  • 90 (a)
OneToOne
chicken
(Gallus gallus)
Aves VAPA 35
  • 87.59 (n)
  • 94.89 (a)
VAPA 36
  • 88 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia VAPA 36
  • 80 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6111 35
vapa 35
  • 71.66 (n)
  • 74.89 (a)
zebrafish
(Danio rerio)
Actinopterygii vapal 35
  • 65.29 (n)
  • 73.55 (a)
vapa 36
  • 85 (a)
OneToMany
vapal 36
  • 72 (a)
OneToMany
fruit fly
(Drosophila melanogaster)
Insecta Vap-33-1 37
  • 53 (a)
fan 36
  • 28 (a)
ManyToMany
Vap-33-1 36
  • 35 (a)
ManyToMany
worm
(Caenorhabditis elegans)
Secernentea vpr-1 36
  • 32 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SCS2 36
  • 24 (a)
ManyToMany
SCS22 36
  • 26 (a)
ManyToMany
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4513 35
Species with no ortholog for VAPA:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • 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)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for VAPA Gene

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

Paralogs for VAPA Gene

Paralogs for VAPA Gene

(1) SIMAP similar genes for VAPA Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for VAPA Gene

genes like me logo Genes that share paralogs with VAPA: view

Variants for VAPA Gene

Sequence variations from dbSNP and Humsavar for VAPA Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type
rs1044163 - 9,914,279(+) GGCCA(C/T)GGCGA reference, missense
rs1127666 - 9,936,188(+) TCCAC(C/T)AAACA reference, missense
rs3069 -- 9,959,496(+) AACCT(A/G)CAAGA utr-variant-3-prime
rs3070 -- 9,958,525(-) CAATT(A/T)TCTTT utr-variant-3-prime
rs28212 -- 9,959,885(-) TTTTG(A/G)ATTAA utr-variant-3-prime

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

Variant ID Type Subtype PubMed ID
nsv833586 CNV Loss 17160897
nsv527829 CNV Gain 19592680
esv24761 CNV Loss 19812545
esv2716779 CNV Deletion 23290073
esv2012315 CNV Deletion 18987734
esv5283 CNV Deletion 18987735
nsv131733 CNV Loss 16902084
esv1000474 CNV Deletion 20482838
esv1026283 CNV Deletion 17803354
nsv131589 CNV Loss 16902084
nsv526637 CNV Loss 19592680

Variation tolerance for VAPA Gene

Residual Variation Intolerance Score: 35.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.22% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for VAPA Gene

HapMap Linkage Disequilibrium report
VAPA

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

Disorders for VAPA Gene

MalaCards: The human disease database

(4) MalaCards diseases for VAPA Gene - From: DISEASES

Disorder Aliases PubMed IDs
botulism
  • foodborne botulism
chief cell adenoma
  • chief cell adenoma of parathyroid gland
amyotrophic lateral sclerosis type 14
  • als14
infant botulism
  • infant intestinal botulism
- elite association - COSMIC cancer census association via MalaCards
Search VAPA in MalaCards View complete list of genes associated with diseases

Relevant External Links for VAPA

Genetic Association Database (GAD)
VAPA
Human Genome Epidemiology (HuGE) Navigator
VAPA
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
VAPA
genes like me logo Genes that share disorders with VAPA: view

No data available for UniProtKB/Swiss-Prot and Genatlas for VAPA Gene

Publications for VAPA Gene

  1. Identification of a human homologue of the vesicle-associated membrane protein (VAMP)-associated protein of 33 kDa (VAP-33): a broadly expressed protein that binds to VAMP. (PMID: 9657962) Weir M.L. … Trimble W.S. (Biochem. J. 1998) 2 3 4 23 67
  2. Molecular cloning and characterization of mammalian homologues of vesicle-associated membrane protein-associated (VAMP-associated) proteins. (PMID: 9920726) Nishimura Y. … Tanaka T. (Biochem. Biophys. Res. Commun. 1999) 2 3 23
  3. Electrostatic interaction between oxysterol-binding protein and VAMP- associated protein A revealed by NMR and mutagenesis studies. (PMID: 20178991) Furuita K. … Kojima C. (J. Biol. Chem. 2010) 3 23
  4. Promotion of neurite extension by protrudin requires its interaction with vesicle-associated membrane protein-associated protein. (PMID: 19289470) Saita S. … Nakayama K.I. (J. Biol. Chem. 2009) 3 23
  5. Human VAP-C negatively regulates hepatitis C virus propagation. (PMID: 19515777) Kukihara H. … Matsuura Y. (J. Virol. 2009) 3 23

Products for VAPA Gene

Sources for VAPA Gene

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