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    VAPB VAMP (vesicle-associated membrane protein)-associated protein B and C [ Homo sapiens (human) ]

    Gene ID: 9217, updated on 22-May-2013
    Official Symbol
    VAPBprovided by HGNC
    Official Full Name
    VAMP (vesicle-associated membrane protein)-associated protein B and Cprovided by HGNC
    Primary source
    HGNC:12649
    Locus tag
    RP5-1018E9.1
    See related
    Ensembl:ENSG00000124164; HPRD:09300; MIM:605704; Vega:OTTHUMG00000032840
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ALS8; VAP-B; VAMP-B
    Summary
    The protein encoded by this gene is a type IV membrane protein found in plasma and intracellular vesicle membranes. The encoded protein is found as a homodimer and as a heterodimer with VAPA. This protein also can interact with VAMP1 and VAMP2 and may be involved in vesicle trafficking. [provided by RefSeq, Jul 2008]
    Location :
    20q13.33
    Sequence :
    Chromosome: 20; NC_000020.10 (56964175..57026157)
    See VAPB in Epigenomics, MapViewer

    Chromosome 20 - NC_000020.10Genomic Context describing neighboring genes Neighboring gene protein phosphatase 4, regulatory subunit 1-like Neighboring gene RAB22A, member RAS oncogene family Neighboring gene adenomatosis polyposis coli down-regulated 1-like Neighboring gene APCDD1L antisense RNA 1 (head to head)

    GeneRIFs: Gene References Into Functions What's a GeneRIF?

    Amyotrophic lateral sclerosis type 8

    Summary from GeneReviews: Amyotrophic Lateral Sclerosis Overview Go to GeneReviews

    Disease Characteristics
    Amyotrophic lateral sclerosis (ALS) is a progressive neurodegenerative disease involving both upper motor neurons (UMN) and lower motor neurons (LMN). UMN signs include hyperreflexia, extensor plantar response, increased muscle tone, and weakness in a topographic representation. LMN signs include weakness, muscle wasting, hyporeflexia, muscle cramps, and fasciculations. Initial presentation varies. Affected individuals typically present with either asymmetric focal weakness of the extremities (stumbling or poor handgrip) or bulbar findings (dysarthria, dysphagia). Other findings may include muscle fasciculations, muscle cramps, and labile affect, but not necessarily mood. Regardless of initial symptoms, atrophy and weakness eventually affect other muscles. The mean age of onset is 56 years in individuals with no known family history and 46 years in individuals with more than one affected family member (familial ALS or FALS). Average disease duration is about three years, but it can vary significantly. Death usually results from compromise of the respiratory muscles.
    Diagnosis Testing
    The diagnosis of ALS is based on clinical features, electrodiagnostic testing, and exclusion of other health conditions with related symptoms. Molecular genetic testing, available in clinical laboratories for several genes associated with ALS, plays a prominent role in diagnosis of the genetic subtype and genetic counseling.
    Genetic Counseling
    Amyotrophic lateral sclerosis can be inherited in an autosomal dominant, autosomal recessive, or X-linked manner. Genetic counseling and risk assessment depend on accurate determination of the specific genetic diagnosis.
    References
    Products Interactant Other Gene Complex Source Pubs Description
    O95292 P48039 MTNR1A    HPRD  PubMed  
    O95292 P23763 VAMP1    HPRD  PubMed  
    O95292 P63027 VAMP2    HPRD  PubMed  
    O95292 O95292 VAPB    HPRD  PubMed  
    BioGRID:114650 BioGRID:108403 ESR1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:199471 Epha4    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:114650 BioGRID:1205534 HCVgp1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:109424 HNRNPC    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:109850 INSIG1    BioGRID  PubMed Affinity Capture-Western 
    BioGRID:114650 BioGRID:110497 MPST    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:110639 MTNR1A    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:125384 OSBPL9    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:111059 OXCT1    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:115786 PITRM1    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:207877 Rassf1    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:212454 Rmdn3    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:126627 S100A16    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:121536 SCAF4    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:114926 SEC22B    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:116015 SEPT9    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:112676 STX1A    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:125203 STX1B    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:108368 STX2    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:112679 STX4    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:112680 STX5    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:112937 TJP1    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:113164 UBC    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:113885 UBL4A    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:113232 UQCRFS1    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:116077 USP20    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:112710 VAMP1    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:112711 VAMP2    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:114651 VAPA    BioGRID  PubMed Reconstituted Complex 
    BioGRID:114650 BioGRID:113257 VCL    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:113262 VDAC3    BioGRID  PubMed Co-fractionation 
    BioGRID:114650 BioGRID:113269 VHL    BioGRID  PubMed Affinity Capture-MS 
    BioGRID:114650 BioGRID:122472 VKORC1    BioGRID  PubMed Two-hybrid 
    • Metabolism, organism-specific biosystem (from REACTOME)
      Metabolism, organism-specific biosystemMetabolic processes in human cells generate energy through the oxidation of molecules consumed in the diet and mediate the synthesis of diverse essential molecules not taken in the diet as well as th...
    • Metabolism of lipids and lipoproteins, organism-specific biosystem (from REACTOME)
      Metabolism of lipids and lipoproteins, organism-specific biosystemLipids are hydrophobic but otherwise chemically diverse molecules that play a wide variety of roles in human biology. They include ketone bodies, fatty acids, triacylglycerols, phospholipids and sphi...
    • Sphingolipid de novo biosynthesis, organism-specific biosystem (from REACTOME)
      Sphingolipid de novo biosynthesis, organism-specific biosystemThe main steps involved in de novo sphingolipid synthesis are annotated here (Merrill 2002, Gault et al. 2010).
    • Sphingolipid metabolism, organism-specific biosystem (from REACTOME)
      Sphingolipid metabolism, organism-specific biosystemSphingolipids are derivatives of long chain sphingoid bases such as sphingosine (trans-1,3-dihydroxy 2-amino-4-octadecene), an 18-carbon unsaturated amino alcohol which is the most abundant sphingoid...

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    beta-tubulin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein heterodimerization activity IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein homodimerization activity IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    activation of signaling protein activity involved in unfolded protein response IDA
    Inferred from Direct Assay
    more info
     
    cell death IEA
    Inferred from Electronic Annotation
    more info
     
    cellular calcium ion homeostasis IMP
    Inferred from Mutant Phenotype
    more info
     
    endoplasmic reticulum unfolded protein response IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of viral genome replication IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    small molecule metabolic process TAS
    Traceable Author Statement
    more info
     
    sphingolipid biosynthetic process TAS
    Traceable Author Statement
    more info
     
    sphingolipid metabolic process TAS
    Traceable Author Statement
    more info
     
    virus-host interaction IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    Golgi apparatus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endoplasmic reticulum membrane TAS
    Traceable Author Statement
    more info
     
    integral to membrane IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    vesicle-associated membrane protein-associated protein B/C
    Names
    vesicle-associated membrane protein-associated protein B/C
    VAMP-associated 33 kDa protein

    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.

    Genomic

    1. NG_008073.2 RefSeqGene

      Range
      4931..66913
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001195677.1NP_001182606.1  vesicle-associated membrane protein-associated protein B/C isoform 2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2, also known as VAPC and VAMPC) lacks three exons in the coding region, which results in a frameshift and an early stop codon, compared to variant 1. The encoded isoform (2, also known as VAPC and VAMPC) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AF086629, AK124571, AL035455, BM968517, DA450527
      Consensus CDS
      CCDS56198.1
      UniProtKB/Swiss-Prot
      O95292
      Conserved Domains (1) summary
      pfam00635
      Location:890
      Blast Score: 226
      Motile_Sperm; MSP (Major sperm protein) domain
    2. NM_004738.4NP_004729.1  vesicle-associated membrane protein-associated protein B/C isoform 1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AK023241, AK124571, AL035455, BM968517, DA450527
      Consensus CDS
      CCDS33498.1
      UniProtKB/Swiss-Prot
      O95292
      UniProtKB/TrEMBL
      Q53XM7
      Related
      ENSP00000417175, OTTHUMP00000031393, ENST00000475243, OTTHUMT00000079875
      Conserved Domains (1) summary
      pfam00635
      Location:8111
      Blast Score: 308
      Motile_Sperm; MSP (Major sperm protein) domain

    RNA

    1. NR_036633.1 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3, also known as VAPB-3,4) lacks two alternate internal exons, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK023241, AK124571, AK298036, AL035455, BM968517, DA450527

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 104

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh37.p10 Primary Assembly

    Genomic

    1. NC_000020.10 Reference GRCh37.p10 Primary Assembly

      Range
      56964175..57026157
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate HuRef

    Genomic

    1. AC_000152.1 Alternate HuRef

      Range
      53747058..53809032
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate CHM1_1.0

    Genomic

    1. NC_018931.1 Alternate CHM1_1.0

      Range
      56933640..56995618
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

      Supplemental Content

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