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ISA3 isoamylase 3 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 826481, updated on 18-Sep-2024

Summary

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Official Symbol
ISA3
Official Full Name
isoamylase 3
Primary source
TAIR:AT4G09020
Locus tag
AT4G09020
See related
Araport:AT4G09020
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
ATISA3; F23J3.50; F23J3_50; isoamylase 3
Summary
Encodes an isoamylase-like protein. Mutant studies show that the gene is strongly involved in starch breakdown. A GUS-protein fusion product was shown to localize to the surface of chloroplastic structures reminiscent of starch granules. In the mutants, the chloroplastic alpha-amylase AMY3 is upregulated.
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Genomic context

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See ISA3 in Genome Data Viewer
Location:
chromosome: 4
Exon count:
24
Sequence:
Chromosome: 4; NC_003075.7 (5783909..5789100)

Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene ascorbate peroxidase 4 Neighboring gene ncRNA Neighboring gene Mitochondrial ribosomal protein L27 Neighboring gene uncharacterized protein Neighboring gene arabinogalactan protein 10 Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003075.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Evidence for distinct mechanisms of starch granule breakdown in plants. Delatte T, et al. J Biol Chem, 2006 Apr 28. PMID 16495218
  2. Starch granule biosynthesis in Arabidopsis is abolished by removal of all debranching enzymes but restored by the subsequent removal of an endoamylase. Streb S, et al. Plant Cell, 2008 Dec. PMID 19074683, Free PMC Article
  3. Further evidence for the mandatory nature of polysaccharide debranching for the aggregation of semicrystalline starch and for overlapping functions of debranching enzymes in Arabidopsis leaves. Wattebled F, et al. Plant Physiol, 2008 Nov. PMID 18815382, Free PMC Article
  4. The debate on the pathway of starch synthesis: a closer look at low-starch mutants lacking plastidial phosphoglucomutase supports the chloroplast-localized pathway. Streb S, et al. Plant Physiol, 2009 Dec. PMID 19776162, Free PMC Article
  5. The oligomeric stromal proteome of Arabidopsis thaliana chloroplasts. Peltier JB, et al. Mol Cell Proteomics, 2006 Jan. PMID 16207701

See all (9) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data propose that ISA3 function in normal amylopectin synthesis by promoting amylopectin crystallization but conclude that they are not mandatory for starch granule synthesis.
    Title: Starch granule biosynthesis in Arabidopsis is abolished by removal of all debranching enzymes but restored by the subsequent removal of an endoamylase.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Markers

NM_116971.6

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables isoamylase activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in starch catabolic process IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within starch catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in chloroplast HDA PubMed 
located_in chloroplast ISM
Inferred from Sequence Model
more info
  
located_in chloroplast starch grain IDA
Inferred from Direct Assay
more info
 PubMed 
located_in chloroplast stroma HDA PubMed 

General protein information

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Preferred Names
isoamylase 3
NP_192641.2
  • isoamylase 3 (ISA3); FUNCTIONS IN: isoamylase activity, alpha-amylase activity; INVOLVED IN: carbohydrate metabolic process, starch catabolic process; LOCATED IN: chloroplast, chloroplast stroma, chloroplast starch grain; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Glycosyl hydrolase, family 13, all-beta (InterPro:IPR013780), Immunoglobulin-like fold (InterPro:IPR013783), Glycoside hydrolase, family 13, N-terminal (InterPro:IPR004193), Immunoglobulin E-set (InterPro:IPR014756), Glycoside hydrolase, catalytic core (InterPro:IPR017853), Glycoside hydrolase, subgroup, catalytic core (InterPro:IPR013781), Glycosyl hydrolase, family 13, catalytic domain (InterPro:IPR006047); BEST Arabidopsis thaliana protein match is: isoamylase 1 (TAIR:AT2G39930.1); 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_003075.7 Reference assembly

    Range
    5783909..5789100
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_116971.6 → NP_192641.2  isoamylase 3 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_192641.2

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8RWW6, Q9M0S5
    UniProtKB/TrEMBL
    A0A178V6J6
    Conserved Domains (3) summary
    cd02856
    Location:91 → 240
    E_set_GDE_Isoamylase_N; N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase)
    cd11326
    Location:220 → 659
    AmyAc_Glg_debranch; Alpha amylase catalytic domain found in glycogen debranching enzymes
    COG1523
    Location:78 → 739
    PulA; Pullulanase/glycogen debranching enzyme [Carbohydrate transport and metabolism]
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9M0S5.2

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