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    SIP2 seed imbibition 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 824919, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SIP2
    Official Full Name
    seed imbibition 2
    Primary source
    TAIR:AT3G57520
    Locus tag
    AT3G57520
    See related
    Araport:AT3G57520
    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
    AtSIP2; raffinose synthase 2; RS2; seed imbibition 2
    Summary
    SIP2 encodes a raffinose-specific alpha-galactosidase that catalyzes the breakdown of raffinose into alpha-galatose and sucrose. This enzyme may function in unloading raffinose from the phloem as part of sink metabolism. Although it was originally predicted to act as a raffinose synthase (RS), that activity was not observed for recombinant SIP2.
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    Genomic context

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    See SIP2 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    14
    Sequence:
    Chromosome: 3; NC_003074.8 (21288742..21293171, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene fission regulator-like protein Neighboring gene Pectin lyase-like superfamily protein Neighboring gene calcium-dependent protein kinase 32 Neighboring gene Remorin family protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Functional identification of Arabidopsis ATSIP2 (At3g57520) as an alkaline α-galactosidase with a substrate specificity for raffinose and an apparent sink-specific expression pattern. Peters S, et al. Plant Cell Physiol, 2010 Oct. PMID 20739305
    2. Conservation and molecular dissection of ROUGH SHEATH2 and ASYMMETRIC LEAVES1 function in leaf development. Theodoris G, et al. Proc Natl Acad Sci U S A, 2003 May 27. PMID 12750468, Free PMC Article
    3. Galactinol and raffinose constitute a novel function to protect plants from oxidative damage. Nishizawa A, et al. Plant Physiol, 2008 Jul. PMID 18502973, Free PMC Article
    4. Arabidopsis plasmodesmal proteome. Fernandez-Calvino L, et al. PLoS One, 2011 Apr 20. PMID 21533090, Free PMC Article
    5. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. ATSIP2 encodes a Raf-specific alkaline alpha-galactosidase (and not a raffinose synthase) and suggest that it is involved in sink metabolism, most probably in phloem unloading of Raf.
      Title: Functional identification of Arabidopsis ATSIP2 (At3g57520) as an alkaline α-galactosidase with a substrate specificity for raffinose and an apparent sink-specific expression pattern.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_115612.3
    NM_180384.1
    NM_202722.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    NOT enables galactinol-sucrose galactosyltransferase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables galactinol-sucrose galactosyltransferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables raffinose alpha-galactosidase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within raffinose catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    acts_upstream_of_or_within response to oxidative stress IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plasmodesma HDA PubMed 

    General protein information

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    Preferred Names
    seed imbibition 2
    NP_191311.1
    • seed imbibition 2 (SIP2); CONTAINS InterPro DOMAIN/s: Glycoside hydrolase, catalytic core (InterPro:IPR017853), Raffinose synthase (InterPro:IPR008811); BEST Arabidopsis thaliana protein match is: seed imbibition 1 (TAIR:AT1G55740.1); Has 528 Blast hits to 504 proteins in 147 species: Archae - 29; Bacteria - 95; Metazoa - 0; Fungi - 82; Plants - 312; Viruses - 0; Other Eukaryotes - 10 (source: NCBI BLink).
    NP_850715.1
    • seed imbibition 2 (SIP2); CONTAINS InterPro DOMAIN/s: Glycoside hydrolase, catalytic core (InterPro:IPR017853), Raffinose synthase (InterPro:IPR008811); BEST Arabidopsis thaliana protein match is: seed imbibition 1 (TAIR:AT1G55740.1); Has 515 Blast hits to 494 proteins in 148 species: Archae - 29; Bacteria - 95; Metazoa - 0; Fungi - 82; Plants - 301; Viruses - 0; Other Eukaryotes - 8 (source: NCBI BLink).
    NP_974451.1
    • seed imbibition 2 (SIP2); CONTAINS InterPro DOMAIN/s: Glycoside hydrolase, catalytic core (InterPro:IPR017853), Raffinose synthase (InterPro:IPR008811); BEST Arabidopsis thaliana protein match is: seed imbibition 1 (TAIR:AT1G55740.1); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (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_003074.8 Reference assembly

      Range
      21288742..21293171 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_115612.3 → NP_191311.1  seed imbibition 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_191311.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q0WWI0, Q3EAI2, Q3EAI3, Q94A08, Q9SCM1
      UniProtKB/TrEMBL
      A0A178VJQ6
      Conserved Domains (1) summary
      PLN02219
      Location:1 → 773
      PLN02219; probable galactinol--sucrose galactosyltransferase 2

    2. NM_202722.1 → NP_974451.1  seed imbibition 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974451.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4J3E6
      Conserved Domains (1) summary
      cl07893
      Location:1 → 551
      AmyAc_family; Alpha amylase catalytic domain family

    3. NM_180384.1 → NP_850715.1  seed imbibition 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850715.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VJQ6, A0A5S9XMF3, A0A654FIP0
      Conserved Domains (1) summary
      cl07893
      Location:1 → 656
      AmyAc_family; Alpha amylase catalytic domain family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q94A08.2

    Gene LinkOut

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