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VPS18 Gene

protein-coding   GIFtS: 57

GC15P038974
vacuolar protein sorting 18 homolog (S. cerevisiae)
(Previous name: vacuolar protein sorting protein 18 )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
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Aliases
KIAA1475 1, 2, 3
PEP3 1, 2
hVPS18 3
Descriptions
vacuolar protein sorting 18 2
vacuolar protein sorting 18 homolog (S. cerevisiae) 2
vacuolar protein sorting protein 18 1, 2
External Ids
HGNC: 159721
Entrez Gene: 576172
UniProtKB: Q9P2533
Ensembl: ENSG000001041427
Search outside databases for aliases for VPS18 gene

Previous GC identifers: GC15P036554 GC15P034082 GC15P038765 GC15P038902

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

EntrezGene summary for VPS18:
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 Vps18 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. [provided by RefSeq]

UniProtKB/Swiss-Prot: VPS18_HUMAN, Q9P253
Function: May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in
membrane docking/fusion reactions of late endosomes/lysosomes

Gene Wiki entry for VPS18

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the VPS18 gene  

Entrez Gene cytogenetic band: 15q14-q15   Ensembl cytogenetic band:  15q15.1   HGNC cytogenetic band: 15q14-q15

VPS18 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)

GeneLoc gene densities for chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P038974:     (about GC identifiers)

Start:
38,973,920 bp from pter
End:
38,983,465 bp from pter
Size:
9,546 bases
Orientation:
plus strand
RefSeq DNA sequence:
NC_000015.8  NT_010194.16  
(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: VPS18_HUMAN, Q9P253 (See protein sequence)
Recommended Name: Vacuolar protein sorting-associated protein 18 homolog  
Size: 973 amino acids; 110186 Da
Subunit: Interacts with HOOK1 (By similarity). Large hetero-oligomeric complex together with VPS11,
VPS16 and VPS33A. Interacts with STX7
Subcellular location: 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
Secondary accessions: Q8TCG0 Q96DI3 Q9H268
Alternative splicing: 2 isoforms:  Q9P253-1   Q9P253-2   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_065908.1  

    ENSEMBL proteins: 
    ENSP00000220509 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (VPS18)
    Human Recombinant Proteins from Abnova (VPS18)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    5 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005765 lysosomal membrane IEA--
    GO:0005769 early endosome IEA--
    GO:0005884 actin filament IEA--
    GO:0016020 membrane IEA--
    GO:0031902 late endosome membrane IEA--
    About this table

    Antibodies for VPS18: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for VPS18
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (VPS18), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (VPS18)
    Novus Biologicals Antibodies for VPS18

    Assays for VPS18: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    2 InterPro domains/families:
     IPR017907 Znf_RING_CS
     IPR007810 Pep3_Vps18


       GeneDecks  VPS18 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q9P253

    ProtoNet protein and cluster: Q9P253

    2 Blocks protein families:
    IPB001841 Zn-finger
    IPB007810 Pep3/Vps18/deep orange


    UniProtKB/Swiss-Prot: VPS18_HUMAN, Q9P253
    Similarity: Belongs to the VPS18 family
    Similarity: Contains 1 clathrin repeat
    Similarity: Contains 1 RING-type zinc finger

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VPS18)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VPS18)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_020857

                  Applied Biosystems Silencer® siRNAs for VPS18

                  Sigma-Aldrich siRNA for VPS18  
                         Sigma-Aldrich shRNA for VPS18  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for VPS18
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_020857
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_020857
                                     untagged cDNA clone in CMV expression vector: NM_020857 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_020857

    UniProtKB/Swiss-Prot: VPS18_HUMAN, Q9P253
    Function: May play a role in vesicle-mediated protein trafficking to lysosomal compartments and in
    membrane docking/fusion reactions of late endosomes/lysosomes

    4 Gene Ontology (GO) molecular function terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003779 actin binding IEA--
    GO:0005515 protein binding IPI17353931
    GO:0008270 zinc ion binding IEA--
    GO:0046872 metal ion binding IEA--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section



    5/6 Interacting proteins for VPS18 (ENSP000002205093 Q9P2531) via UniProtKB, MINT, and/or STRING (see all 6 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CCNA1P783961EBI-1053363, EBI-375065
    STX7ENSP000003096003STRING (score=.91)
    VPS11ENSP000003007933STRING (score=.748)
    VPS8ENSP000002875463STRING (score=.714)
    IDH1ENSP000002609853STRING (score=.708)
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007032 endosome organization IEA--
    GO:0015031 protein transport IEA--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for VPS18

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (VPS18)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (VPS18)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_020857

                  Sigma-Aldrich siRNA for VPS18  
                         Sigma-Aldrich shRNA for VPS18  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_020857  

    REFSEQ mRNAs for VPS18 gene: 

    NM_020857.2   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_020857  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_020857
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_020857
                                     untagged cDNA clone in CMV expression vector: NM_020857 

    Additional cDNA sequence: 

    AB040908.1 AF308802.1 AL713725.1 BC001513.2 

    5 DOTS entries:

    DT.412982  DT.97845994  DT.70104280  DT.75103176  DT.95082977 

    24/164 AceView cDNA sequences (see all 164 ):

    AW188900 BQ018419 CA413853 AL524858 BM314059 BU159902 CK905184 AF308802 
    BM987207 NM_020857 AI560899 CD635831 BQ058903 BQ058274 BM972971 AW511689 
    CB853629 BC001513 BX493534 AB040908 AI587540 BM669495 BQ057408 AI928969 

    highest scoring ESTs for VPS18:

    AA082935 AA037759 AA039249 AA420503 AA420504 AA476967 AA707703 AA779135 AA879408 AB040908 

    Unigene Cluster for VPS18:

    Vacuolar protein sorting 18 homolog (S. cerevisiae)
    Hs.23876  [show with all ESTs]
    Unigene Representative Sequence: AL713725


    GeneLoc Exon Structure

    3 Alternative Splicing Database (ASD) splice patterns (SP) for VPS18

    ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b
    SP1:                    -                           
    SP2:                                                
    SP3:                    -           -               

    About this scheme

    ECgene alternative splicing isoforms for VPS18

    1 Ensembl transcript including schematic representation:
    ENST00000220509  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    VPS18 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for VPS18

    1 / 2 / 3

    4 probe-sets matching VPS18 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    44081_at2, 3 U95-B 1 1.00 1.00 1.00 1.00 AA082935 1.00 1.00 1.00 1

    223346_at2, 3 U133-B 1 1.00 1.00 -- -- AF308802 0.80 1.00 0.91 1

    223346_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    1552276_a_at2 U133Plus2 2 1.00 0.95 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CTTTTGTGCA

    SOURCE GeneReport for Unigene cluster: Hs.23876

    UniProtKB/Swiss-Prot: VPS18_HUMAN, Q9P253
    Tissue specificity: Ubiquitous. Expression was highest in heart and low in lung

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for VPS18 gene from 5/15 species (see all 15 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    VPS181   -- vacuolar protein sorting 18 homolog (S. cerevisiae) 91.26(n)
    97.53(a)
    487503  XM_544627.2  XP_544627.2 
    chimpanzee
    (Pan troglodytes)
    VPS181   -- vacuolar protein sorting 18 homolog (S. cerevisiae) 99.59(n)
    99.69(a)
    467792  XM_523187.2  XP_523187.2 
    cow
    (Bos taurus)
    VPS181   -- vacuolar protein sorting 18 homolog (S. cerevisiae) 90.78(n)
    97.12(a)
    518781  XM_596982.3  XP_596982.2 
    rat
    (Rattus norvegicus)
    Vps181   -- vacuolar protein sorting 18 homolog (S. cerevisiae) 87.56(n)
    95.17(a)
    296083  XM_230471.3  XP_230471.1 
    mouse
    (Mus musculus)
    Vps181, 5 25
    vacuolar protein sorting 18 (yeast)1, 5 87.77(n)1
    95.68(a)1
    2285451  NM_172269.21  NP_758473.21 
     AA1112605  AK0291095  (see all 27)
    About this table        Species with no ortholog for VPS18

    ENSEMBL Gene Tree for VPS18
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

      --
    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/64 NCBI SNPs in VPS18 are shown (see all 64 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 48)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 15 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs80360801,2
    F,H38983676(+) CTTTGG/ACCAGC 1 -- ng314Minor allele frequency- A:0.01EU EA WA 418
    rs80369651,2
    F,H38983621(+) CTCATT/GGGGGA 1 -- ng314Minor allele frequency- G:0.01EU EA WA 414
    rs80337381,2
    H38973805(+) GTTCAG/CCAGCA 1 -- ng514Minor allele frequency- C:0.00EU EA WA 384
    rs124397961,2
    H38983733(+) AGCAGT/AGATTT 1 -- ng314Minor allele frequency- A:0.00EU EA WA 418
    rs125925691,2
    H38973950(+) GCTGAG/ACTGCC 1 -- ut51 ese34Minor allele frequency- A:0.00EU EA WA 418
    rs5955591,2
    A,C,F,H38979850(+) CTGACT/CCTCTA 1 T/T syn1 ese311Minor allele frequency- C:0.16MN EU EA WA NA 2556
    rs169711771,2
    C,F,H38974282(+) GAGTAC/TGAGAA 1 Y/Y syn18Minor allele frequency- T:0.05NA EU EA WA 604
    rs6157361,2
    C,F,H38978938(+) GAGGCC/TGAGCG 1 A/A syn1 ese35Minor allele frequency- T:0.04MN EA WA NA 508
    rs49245121,2
    H38982738(+) GCTGAG/ATGTGT 1 E/E syn14Minor allele frequency- A:0.00EU EA WA 416
    rs129149731,2
    H38980441(+) CACCGC/TGCTTG 1 R/R syn1 ese34Minor allele frequency- T:0.00EU EA WA 416
    About this table

    HapMap Linkage Disequilibrium images for VPS18 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 608551

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/15 PubMed articles for VPS18 gene (see all 15 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 57617 HGNC: 15972 AceView: VPS18 Ensembl:ENSG00000104142 euGenes: HUgn57617
    ECgene: VPS18 H-InvDB: VPS18
    (According to HUGE)
    About This Section

    HUGE: KIAA1475
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for VPS18:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for VPS18 Antibodies for VPS18
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for VPS18 Browse small molecules at Sigma-Aldrich
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     Antibodies for VPS18

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