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    VAM3 Syntaxin/t-SNARE family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 834730, updated on 18-Sep-2024

    Summary

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    Official Symbol
    VAM3
    Official Full Name
    Syntaxin/t-SNARE family protein
    Primary source
    TAIR:AT5G46860
    Locus tag
    AT5G46860
    See related
    Araport:AT5G46860
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    ARABIDOPSIS THALIANA SYNTAXIN OF PLANTS 22; ARABIDOPSIS THALIANA VACUOLAR MORPHOLOGY 3; ATSYP22; ATVAM3; SGR3; SHOOT GRAVITROPISM 3; SYNTAXIN OF PLANTS 22; SYP22; VACUOLAR MORPHOLOGY 3
    Summary
    Syntaxin-related protein required for vacuolar assembly. A member of t-SNARE superfamily, homologous to yest Vam3p. Localized in the vacuolar membranes. The protein has a heptad repeat structure (residues164#Aei220) in which hydrophobic amino acid residues appear at seven amino acid intervals. Such regions have a high potential to form an amphiphilic a-helix, intriguing for the intermolecular interactions by forming coiled-coil structure. AtVam3p has a highly hydrophobic segment at its C terminus thus implicating it to be a membrane protein while the rest of the sequence is hydrophilic.
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    Genomic context

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    See VAM3 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    7
    Sequence:
    Chromosome: 5; NC_003076.8 (19012021..19014110, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene ncRNA Neighboring gene phosphatidylinositol-glycan biosynthesis class X-like protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene Putative membrane lipoprotein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. SGR1, SGR2, SGR3: novel genetic loci involved in shoot gravitropism in Arabidopsis thaliana. Fukaki H, et al. Plant Physiol, 1996 Mar. PMID 8819871, Free PMC Article
    2. The AtVAM3 encodes a syntaxin-related molecule implicated in the vacuolar assembly in Arabidopsis thaliana. Sato MH, et al. J Biol Chem, 1997 Sep 26. PMID 9305917
    3. The dynamic changes of tonoplasts in guard cells are important for stomatal movement in Vicia faba. Gao XQ, et al. Plant Physiol, 2005 Nov. PMID 16244153, Free PMC Article
    4. AtVAM3 is required for normal specification of idioblasts, myrosin cells. Ueda H, et al. Plant Cell Physiol, 2006 Jan. PMID 16306062
    5. SNARE proteins SYP22 and VAMP727 negatively regulate plant defense. Zhu XF, et al. Plant Signal Behav, 2019. PMID 31025584, Free PMC Article

    See all (28) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Plant SNAREs SYP22 and SYP23 interact with Tobacco mosaic virus 126 kDa protein and SYP2s are required for normal local virus accumulation and spread.
      Title: Plant SNAREs SYP22 and SYP23 interact with Tobacco mosaic virus 126 kDa protein and SYP2s are required for normal local virus accumulation and spread.
    2. VAMP727-SYP22 SNARE complexes regulate plant defense might be via control of abundances of BRI1 on the plasma membrane.
      Title: SNARE proteins SYP22 and VAMP727 negatively regulate plant defense.
    3. Q-SNARE SYP22 and R-SNARE VAMP727 mediate the BRI trafficking to plasma membrane.
      Title: SYP22 and VAMP727 regulate BRI1 plasma membrane targeting to control plant growth in Arabidopsis.
    4. The frequency of bulbs is affected in the three sgr mutants sgr2, sgr3 and sgr4/zig.
      Title: The occurrence of 'bulbs', a complex configuration of the vacuolar membrane, is affected by mutations of vacuolar SNARE and phospholipase in Arabidopsis.
    5. vacuolar and/or endocytic trafficking is involved in the FLC regulation of flowering time in A. thaliana
      Title: Flowering time modulation by a vacuolar SNARE via FLOWERING LOCUS C in Arabidopsis thaliana.
    6. Vam3 is more concentrated than GFP-AtRab75 in the vacuolar bulb membrane.
      Title: Qualitative difference between "bulb" membranes and other vacuolar membranes.
    7. SYP21, SYP22 and SYP23 function redundantly in vacuolar protein transport, vein patterning, myrosin cell differentiation and plant growth.
      Title: Arabidopsis Qa-SNARE SYP2 proteins localized to different subcellular regions function redundantly in vacuolar protein sorting and plant development.
    8. The functions of VAM3/SYP22 and PEP12/SYP21 are redundant and interchangeable.
      Title: Vacuolar/pre-vacuolar compartment Qa-SNAREs VAM3/SYP22 and PEP12/SYP21 have interchangeable functions in Arabidopsis.
    9. VAM3 is involved in the formation of the vascular network in leaves, and is required for the proper expression pattern of PIN1. Deficiency causes abnormal distribution of auxin in leaf primordia.
      Title: Vacuolar SNAREs function in the formation of the leaf vascular network by regulating auxin distribution.
    10. SYP22 is suppressed by VAMP727, and is associated with the fusion between the prevacuolar compartment and the vacuole.
      Title: A SNARE complex unique to seed plants is required for protein storage vacuole biogenesis and seed development of Arabidopsis thaliana.
    Submit: New GeneRIF Correction See all GeneRIFs (11)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_124057.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables SNAP receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables SNAP receptor activity TAS
    Traceable Author Statement
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within amyloplast organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within intracellular protein transport TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within late endosome to vacuole transport IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within membrane fusion TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within negative gravitropism IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within stomatal movement IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vacuole organization IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in late endosome TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in plant-type vacuole HDA PubMed 
    located_in plant-type vacuole IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in plant-type vacuole membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in trans-Golgi network transport vesicle TAS
    Traceable Author Statement
    more info
    		 PubMed 
    located_in vacuole HDA PubMed 

    General protein information

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    Preferred Names
    Syntaxin/t-SNARE family protein
    NP_568671.1
    • VACUOLAR MORPHOLOGY 3 (VAM3); FUNCTIONS IN: SNAP receptor activity; INVOLVED IN: in 7 processes; LOCATED IN: late endosome, trans-Golgi network transport vesicle, plant-type vacuole membrane, vacuole, plant-type vacuole; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Target SNARE coiled-coil domain (InterPro:IPR000727), t-SNARE (InterPro:IPR010989), Syntaxin/epimorphin, conserved site (InterPro:IPR006012), Syntaxin, N-terminal (InterPro:IPR006011); BEST Arabidopsis thaliana protein match is: syntaxin of plants 23 (TAIR:AT4G17730.2); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      19012021..19014110 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_124057.4 → NP_568671.1  Syntaxin/t-SNARE family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568671.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P93654
      UniProtKB/TrEMBL
      A0A178UDT6, A0A5S9YBV6, A0A7G2FI37
      Conserved Domains (2) summary
      cd15840
      Location:178 → 236
      SNARE_Qa; SNARE motif, subgroup Qa
      pfam14523
      Location:28 → 128
      Syntaxin_2; Syntaxin-like protein
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P93654.1

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