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Q07468

- VAM6_YEAST

UniProt

Q07468 - VAM6_YEAST

Protein

Vacuolar morphogenesis protein 6

Gene

VAM6

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 101 (01 Oct 2014)
      Sequence version 1 (01 Nov 1996)
      Previous versions | rss
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    Functioni

    Required for vacuolar assembly. Acts as component of the HOPS complex that acts during the docking stage of vacuole fusion. HOPS is an effector for the vacuolar Rab GTPase YPT7 and is required for vacuolar SNARE complex assembly. It remains bound to SNARE complexes after vacuole fusion.1 Publication

    GO - Molecular functioni

    1. protein binding Source: IntAct
    2. Rab guanyl-nucleotide exchange factor activity Source: SGD

    GO - Biological processi

    1. intracellular protein transport Source: InterPro
    2. piecemeal microautophagy of nucleus Source: SGD
    3. positive regulation of Rab GTPase activity Source: GOC
    4. regulation of SNARE complex assembly Source: SGD
    5. regulation of vacuole fusion, non-autophagic Source: SGD
    6. vacuole fusion, non-autophagic Source: SGD
    7. vacuole organization Source: SGD
    8. vesicle-mediated transport Source: SGD

    Keywords - Biological processi

    Protein transport, Transport

    Enzyme and pathway databases

    BioCyciYEAST:G3O-29488-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Vacuolar morphogenesis protein 6
    Alternative name(s):
    Vacuolar protein sorting-associated protein 39
    Gene namesi
    Name:VAM6
    Synonyms:CVT4, VPL18, VPL22, VPS39
    Ordered Locus Names:YDL077C
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome IV

    Organism-specific databases

    CYGDiYDL077c.
    SGDiS000002235. VAM6.

    Subcellular locationi

    GO - Cellular componenti

    1. fungal-type vacuole Source: SGD
    2. fungal-type vacuole membrane Source: SGD
    3. HOPS complex Source: SGD

    Keywords - Cellular componenti

    Membrane, Vacuole

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 10491049Vacuolar morphogenesis protein 6PRO_0000065903Add
    BLAST

    Proteomic databases

    MaxQBiQ07468.
    PaxDbiQ07468.
    PeptideAtlasiQ07468.

    Expressioni

    Gene expression databases

    GenevestigatoriQ07468.

    Interactioni

    Subunit structurei

    Component of the HOPS complex which is composed of PEP5, VPS16, PEP3, VPS33, VPS39 and VPS41. HOPS associates with phosphoinositides and the PX domain of VAM7. Interacts with VPS41 and VAM7.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    VPS33P207954EBI-20422,EBI-20395

    Protein-protein interaction databases

    BioGridi31984. 180 interactions.
    DIPiDIP-1002N.
    IntActiQ07468. 10 interactions.
    MINTiMINT-423868.
    STRINGi4932.YDL077C.

    Structurei

    3D structure databases

    ProteinModelPortaliQ07468.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Repeati730 – 896167CHCRAdd
    BLAST

    Sequence similaritiesi

    Belongs to the VAM6/VPS39 family.Curated
    Contains 1 CHCR (clathrin heavy-chain) repeat.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG270269.
    GeneTreeiENSGT00530000063596.
    HOGENOMiHOG000154806.
    OMAiWAPPQLV.
    OrthoDBiEOG72G1H6.

    Family and domain databases

    InterProiIPR000547. Clathrin_H-chain/VPS_repeat.
    IPR019452. VPS39/TGF_beta_rcpt-assoc_1.
    IPR019453. VPS39/TGF_beta_rcpt-assoc_2.
    [Graphical view]
    PfamiPF10366. Vps39_1. 1 hit.
    PF10367. Vps39_2. 1 hit.
    [Graphical view]
    PROSITEiPS50236. CHCR. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q07468-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLRAQKLHSL KSSDITAILP TEQSQKLVLA KKNGDVEVYS RDGNTLKLFQ     50
    VYPDLLQNAK NDPLPPVIEN FYFANELSTI FAQCKETLIL LSTTNLHEYD 100
    RIIDRRGINH CWLFERSHKN KEEKNTYLIY STINTAKMRV LIWEGRTYKN 150
    MMEASLSYRK ETIRSIYPGE TGITLATDLG IYHWPYNKPS LIRIEKTVKN 200
    KFPKDMISAL TELKEQAEKV IEKKPKKNSH FDAQSFSSMD RMSRKSSMSS 250
    LWYRTIRNER GNKIRYTFEL DGNDATPMII DGATKKIFKV ELMHNNEEPF 300
    LIATDHATFS ESNSEFDHMQ YLSSNLLMLY NSSTIKFVDY ENGFTFLQQK 350
    IPEGIKWVKN LSGTYFLVWT SNDEVQLFSY HVDDGSEDDD QESICGDIND 400
    PDFYQLWRKV LFYKFFIDSP HSKELCVSDN PEESLDICAM KLRDLTVMWC 450
    LRIFDKFQNY MVQLERSRNS RMIRSKCEEM IIKSIFDLFI KFWAPPQLVI 500
    LKVFPSAISS LVLEITGQEH HCLLKEAEEV KETYDIPPHL LNRWCLPYLT 550
    DTRRHLQNLL SKENDDESRI TWCYRDREIK QSFDFFLISN HDDVDLNTML 600
    TLIDTVLFKC YLYYNPPMVG PFIRVENHCD SHVIVTELKI RHMFKDLIDF 650
    YYKRGNHEEA LKFLTDLVDE LENDNTDQKQ RQKIDHGVKI LVIYYLKKLS 700
    NPQLDVIFTY TDWLLNRHND SIKEILSSIF FYDSQACSSR DHLKVYGYIK 750
    KFDKLLAIQY LEFAISTFRL EGNKLHTVLI KLYLENLDIP STRIKLKSLL 800
    ETTSVYEPRT ILKLLNDAIE SGSDQLPTNQ LNFVKYLKIF PLSKLENHKE 850
    AVHILLDEID DYKAATSYCN DVYQSDSTKG EELLLYLYSK LVSIYDSNRN 900
    SKLILNFLQD HGSKLNSAEI YKNLPQDISL YDIGRVVSQL LKKHTSKMDE 950
    TRLEKALLQV ELVATTYKLN ERMSSYGVLS DSHKCPICKK VISNFGTDSI 1000
    SWFTREGRNI ITHYNCGKVL QERFNAKNEK SSRIKQKTLG EVINELNNK 1049
    Length:1,049
    Mass (Da):122,882
    Last modified:November 1, 1996 - v1
    Checksum:iEE8D94E7E2F5F078
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z74125 Genomic DNA. Translation: CAA98643.1.
    D83058 Genomic DNA. Translation: BAA11758.1.
    BK006938 Genomic DNA. Translation: DAA11782.1.
    PIRiS67613.
    RefSeqiNP_010206.1. NM_001180136.1.

    Genome annotation databases

    EnsemblFungiiYDL077C; YDL077C; YDL077C.
    GeneIDi851482.
    KEGGisce:YDL077C.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z74125 Genomic DNA. Translation: CAA98643.1 .
    D83058 Genomic DNA. Translation: BAA11758.1 .
    BK006938 Genomic DNA. Translation: DAA11782.1 .
    PIRi S67613.
    RefSeqi NP_010206.1. NM_001180136.1.

    3D structure databases

    ProteinModelPortali Q07468.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31984. 180 interactions.
    DIPi DIP-1002N.
    IntActi Q07468. 10 interactions.
    MINTi MINT-423868.
    STRINGi 4932.YDL077C.

    Proteomic databases

    MaxQBi Q07468.
    PaxDbi Q07468.
    PeptideAtlasi Q07468.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YDL077C ; YDL077C ; YDL077C .
    GeneIDi 851482.
    KEGGi sce:YDL077C.

    Organism-specific databases

    CYGDi YDL077c.
    SGDi S000002235. VAM6.

    Phylogenomic databases

    eggNOGi NOG270269.
    GeneTreei ENSGT00530000063596.
    HOGENOMi HOG000154806.
    OMAi WAPPQLV.
    OrthoDBi EOG72G1H6.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-29488-MONOMER.

    Miscellaneous databases

    NextBioi 968798.

    Gene expression databases

    Genevestigatori Q07468.

    Family and domain databases

    InterProi IPR000547. Clathrin_H-chain/VPS_repeat.
    IPR019452. VPS39/TGF_beta_rcpt-assoc_1.
    IPR019453. VPS39/TGF_beta_rcpt-assoc_2.
    [Graphical view ]
    Pfami PF10366. Vps39_1. 1 hit.
    PF10367. Vps39_2. 1 hit.
    [Graphical view ]
    PROSITEi PS50236. CHCR. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Vam2/Vps41p and Vam6/Vps39p are components of a protein complex on the vacuolar membranes and involved in the vacuolar assembly in the yeast Saccharomyces cerevisiae."
      Nakamura N., Hirata A., Ohsumi Y., Wada Y.
      J. Biol. Chem. 272:11344-11349(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV."
      Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T.
      , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P.
      Nature 387:75-78(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    5. "Purification of active HOPS complex reveals its affinities for phosphoinositides and the SNARE Vam7p."
      Stroupe C., Collins K.M., Fratti R.A., Wickner W.
      EMBO J. 25:1579-1589(2006) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION IN THE HOPS COMPLEX, FUNCTION OF THE HOPS COMPLEX, INTERACTION WITH VAM7.
    6. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
      Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
      Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
      Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiVAM6_YEAST
    AccessioniPrimary (citable) accession number: Q07468
    Secondary accession number(s): D6VRS2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1996
    Last modified: October 1, 2014
    This is version 101 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 319 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome IV
      Yeast (Saccharomyces cerevisiae) chromosome IV: entries and gene names

    External Data

    Dasty 3