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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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