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Protein

Syntaxin VAM3

Gene

VAM3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Required for vacuolar assembly. Provides the t-SNARE function in a late step of the vacuolar assembly. Required for homotypic vacuole membrane fusion, autophagy and fusion of biosynthetic transport vesicles with the vacuole. Required for the delivery of alpha-factor receptor-ligand complexes to the vacuole.

GO - Molecular functioni

  • SNAP receptor activity Source: SGD
  • SNARE binding Source: GO_Central

GO - Biological processi

  • autophagosome maturation Source: SGD
  • Golgi to vacuole transport Source: GO_Central
  • intracellular protein transport Source: GO_Central
  • piecemeal microautophagy of nucleus Source: SGD
  • vacuole fusion, non-autophagic Source: SGD
  • vesicle docking Source: SGD
  • vesicle fusion Source: SGD
  • vesicle fusion with vacuole Source: SGD
Complete GO annotation...

Keywords - Biological processi

Autophagy

Enzyme and pathway databases

BioCyciYEAST:G3O-33637-MONOMER.

Protein family/group databases

TCDBi1.F.1.1.2. the synaptosomal vesicle fusion pore (svf-pore) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Syntaxin VAM3
Alternative name(s):
Vacuolar morphogenesis protein 3
Gene namesi
Name:VAM3
Synonyms:PTH1
Ordered Locus Names:YOR106W
ORF Names:YOR3220W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XV

Organism-specific databases

EuPathDBiFungiDB:YOR106W.
SGDiS000005632. VAM3.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 261261CytoplasmicSequence analysisAdd
BLAST
Transmembranei262 – 28221Helical; Anchor for type IV membrane proteinSequence analysisAdd
BLAST
Topological domaini283 – 2831VacuolarSequence analysis

GO - Cellular componenti

  • endomembrane system Source: GO_Central
  • fungal-type vacuole membrane Source: SGD
  • integral component of membrane Source: GO_Central
  • SNARE complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Vacuole

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 283283Syntaxin VAM3PRO_0000210280Add
BLAST

Proteomic databases

MaxQBiQ12241.

PTM databases

iPTMnetiQ12241.
SwissPalmiQ12241.

Interactioni

Subunit structurei

Associates with VAM7.

Binary interactionsi

WithEntry#Exp.IntActNotes
NYV1Q1225510EBI-20227,EBI-35465
VAM7P329125EBI-20227,EBI-20232

GO - Molecular functioni

  • SNAP receptor activity Source: SGD
  • SNARE binding Source: GO_Central

Protein-protein interaction databases

BioGridi34502. 221 interactions.
DIPiDIP-1726N.
IntActiQ12241. 6 interactions.
MINTiMINT-384960.

Structurei

Secondary structure

1
283
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi25 – 5026Combined sources
Beta strandi53 – 553Combined sources
Helixi58 – 669Combined sources
Helixi68 – 8114Combined sources
Helixi84 – 874Combined sources
Helixi89 – 11527Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HS7NMR-A23-119[»]
ProteinModelPortaliQ12241.
SMRiQ12241. Positions 23-119, 199-236.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ12241.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini190 – 25263t-SNARE coiled-coil homologyPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili28 – 4821Sequence analysisAdd
BLAST
Coiled coili84 – 11128Sequence analysisAdd
BLAST
Coiled coili169 – 18921Sequence analysisAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi174 – 1796Poly-Gln
Compositional biasi268 – 2714Poly-Ile

Sequence similaritiesi

Belongs to the syntaxin family.Curated
Contains 1 t-SNARE coiled-coil homology domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil, Transmembrane, Transmembrane helix

Phylogenomic databases

HOGENOMiHOG000141965.
InParanoidiQ12241.
KOiK08488.
OMAiQETELEY.
OrthoDBiEOG7XPZJK.

Family and domain databases

InterProiIPR006012. Syntaxin/epimorphin_CS.
IPR010989. t-SNARE.
IPR000727. T_SNARE_dom.
[Graphical view]
PfamiPF05739. SNARE. 1 hit.
[Graphical view]
SMARTiSM00397. t_SNARE. 1 hit.
[Graphical view]
SUPFAMiSSF47661. SSF47661. 1 hit.
PROSITEiPS00914. SYNTAXIN. 1 hit.
PS50192. T_SNARE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q12241-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSFFDIEAQS SKGNSQQEPQ FSTNQKTKEL SNLIETFAEQ SRVLEKECTK
60 70 80 90 100
IGSKRDSKEL RYKIETELIP NCTSVRDKIE SNILIHQNGK LSADFKNLKT
110 120 130 140 150
KYQSLQQSYN QRKSLFPLKT PISPGTSKER KDIHPRTEAV RQDPESSYIS
160 170 180 190 200
IKVNEQSPLL HNEGQHQLQL QEEQEQQQQG LSQEELDFQT IIHQERSQQI
210 220 230 240 250
GRIHTAVQEV NAIFHQLGSL VKEQGEQVTT IDENISHLHD NMQNANKQLT
260 270 280
RADQHQRDRN KCGKVTLIII IVVCMVVLLA VLS
Length:283
Mass (Da):32,498
Last modified:November 1, 1997 - v1
Checksum:i6415D9D852C6C64D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U57827 Genomic DNA. Translation: AAC49737.1.
X94335 Genomic DNA. Translation: CAA64026.1.
Z75014 Genomic DNA. Translation: CAA99304.1.
BK006948 Genomic DNA. Translation: DAA10881.1.
PIRiS61664.
RefSeqiNP_014749.1. NM_001183525.1.

Genome annotation databases

EnsemblFungiiYOR106W; YOR106W; YOR106W.
GeneIDi854273.
KEGGisce:YOR106W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U57827 Genomic DNA. Translation: AAC49737.1.
X94335 Genomic DNA. Translation: CAA64026.1.
Z75014 Genomic DNA. Translation: CAA99304.1.
BK006948 Genomic DNA. Translation: DAA10881.1.
PIRiS61664.
RefSeqiNP_014749.1. NM_001183525.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1HS7NMR-A23-119[»]
ProteinModelPortaliQ12241.
SMRiQ12241. Positions 23-119, 199-236.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi34502. 221 interactions.
DIPiDIP-1726N.
IntActiQ12241. 6 interactions.
MINTiMINT-384960.

Protein family/group databases

TCDBi1.F.1.1.2. the synaptosomal vesicle fusion pore (svf-pore) family.

PTM databases

iPTMnetiQ12241.
SwissPalmiQ12241.

Proteomic databases

MaxQBiQ12241.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYOR106W; YOR106W; YOR106W.
GeneIDi854273.
KEGGisce:YOR106W.

Organism-specific databases

EuPathDBiFungiDB:YOR106W.
SGDiS000005632. VAM3.

Phylogenomic databases

HOGENOMiHOG000141965.
InParanoidiQ12241.
KOiK08488.
OMAiQETELEY.
OrthoDBiEOG7XPZJK.

Enzyme and pathway databases

BioCyciYEAST:G3O-33637-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ12241.
PROiQ12241.

Family and domain databases

InterProiIPR006012. Syntaxin/epimorphin_CS.
IPR010989. t-SNARE.
IPR000727. T_SNARE_dom.
[Graphical view]
PfamiPF05739. SNARE. 1 hit.
[Graphical view]
SMARTiSM00397. t_SNARE. 1 hit.
[Graphical view]
SUPFAMiSSF47661. SSF47661. 1 hit.
PROSITEiPS00914. SYNTAXIN. 1 hit.
PS50192. T_SNARE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Vam3p, a new member of syntaxin related protein, is required for vacuolar assembly in the yeast Saccharomyces cerevisiae."
    Wada Y., Nakamura N., Ohsumi Y., Hirata A.
    J. Cell Sci. 110:1299-1306(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 26786 / X2180-1A.
  2. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  3. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XV."
    Dujon B., Albermann K., Aldea M., Alexandraki D., Ansorge W., Arino J., Benes V., Bohn C., Bolotin-Fukuhara M., Bordonne R., Boyer J., Camasses A., Casamayor A., Casas C., Cheret G., Cziepluch C., Daignan-Fornier B., Dang V.-D.
    , de Haan M., Delius H., Durand P., Fairhead C., Feldmann H., Gaillon L., Galisson F., Gamo F.-J., Gancedo C., Goffeau A., Goulding S.E., Grivell L.A., Habbig B., Hand N.J., Hani J., Hattenhorst U., Hebling U., Hernando Y., Herrero E., Heumann K., Hiesel R., Hilger F., Hofmann B., Hollenberg C.P., Hughes B., Jauniaux J.-C., Kalogeropoulos A., Katsoulou C., Kordes E., Lafuente M.J., Landt O., Louis E.J., Maarse A.C., Madania A., Mannhaupt G., Marck C., Martin R.P., Mewes H.-W., Michaux G., Paces V., Parle-McDermott A.G., Pearson B.M., Perrin A., Pettersson B., Poch O., Pohl T.M., Poirey R., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rechmann S., Schwager C., Schweizer M., Sor F., Sterky F., Tarassov I.A., Teodoru C., Tettelin H., Thierry A., Tobiasch E., Tzermia M., Uhlen M., Unseld M., Valens M., Vandenbol M., Vetter I., Vlcek C., Voet M., Volckaert G., Voss H., Wambutt R., Wedler H., Wiemann S., Winsor B., Wolfe K.H., Zollner A., Zumstein E., Kleine K.
    Nature 387:98-102(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  4. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  5. "A multispecificity syntaxin homologue, Vam3p, essential for autophagic and biosynthetic protein transport to the vacuole."
    Darsow T., Rieder S.E., Emr S.D.
    J. Cell Biol. 138:517-529(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
  6. "A syntaxin homolog encoded by VAM3 mediates down-regulation of a yeast G protein-coupled receptor."
    Stefan C.J., Blumer K.J.
    J. Biol. Chem. 274:1835-1841(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION.
  7. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  8. "Vam3p structure reveals conserved and divergent properties of syntaxins."
    Dulubova I., Yamaguchi T., Wang Y., Suedhof T.C., Rizo J.
    Nat. Struct. Biol. 8:258-264(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 23-119.

Entry informationi

Entry nameiVAM3_YEAST
AccessioniPrimary (citable) accession number: Q12241
Secondary accession number(s): D6W2G5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: July 6, 2016
This is version 141 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 414 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.