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DBE1 debranching enzyme 1 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 839531, updated on 18-Sep-2024

Summary

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Official Symbol
DBE1
Official Full Name
debranching enzyme 1
Primary source
TAIR:AT1G03310
Locus tag
AT1G03310
See related
Araport:AT1G03310
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 ISOAMYLASE 2; AtBE2; ATISA2; BE2; BRANCHING ENZYME 2; debranching enzyme 1; F15K9.9; F15K9_9; ISA2
Summary
Encodes a protein with strong similarity to isoamylase (EC:3.2.1.68) however lacks critical residues known to be important for activity. Appears to co localize with ISA1 in the chloroplast isoamylase complex. Mutations in this gene cause the loss of detectable isoamylase activity and the disruption of normal starch structure. It has been postulated that AtISA2 interacts with AtISA1 to form the Iso1 complex.
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Genomic context

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See DBE1 in Genome Data Viewer
Location:
chromosome: 1
Exon count:
2
Sequence:
Chromosome: 1; NC_003070.9 (813413..816812)

Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Transcription factor TFIIE, alpha subunit Neighboring gene ELKS/Rab6-interacting/CAST family protein Neighboring gene agenet domain protein (DOMAIN OF UNKNOWN FUNCTION 724 1) Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene Small nuclear ribonucleoprotein family protein

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Replacement of the endogenous starch debranching enzymes ISA1 and ISA2 of Arabidopsis with the rice orthologs reveals a degree of functional conservation during starch synthesis. Streb S, et al. PLoS One, 2014. PMID 24642810, Free PMC Article
  2. The heteromultimeric debranching enzyme involved in starch synthesis in Arabidopsis requires both isoamylase1 and isoamylase2 subunits for complex stability and activity. Sundberg M, et al. PLoS One, 2013. PMID 24098685, Free PMC Article
  3. Distinct functional properties of isoamylase-type starch debranching enzymes in monocot and dicot leaves. Facon M, et al. Plant Physiol, 2013 Nov. PMID 24027240, Free PMC Article
  4. Arabidopsis mutants Atisa1 and Atisa2 have identical phenotypes and lack the same multimeric isoamylase, which influences the branch point distribution of amylopectin during starch synthesis. Delatte T, et al. Plant J, 2005 Mar. PMID 15743447
  5. 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

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Endogenous starch debranching enzymes ISA1 and ISA2 of Arabidopsis are conserved among diverse groups of plants.
    Title: Replacement of the endogenous starch debranching enzymes ISA1 and ISA2 of Arabidopsis with the rice orthologs reveals a degree of functional conservation during starch synthesis.
  2. Data indicate that analysis of recombinant enzymes showed that Data iindicate that Arabidopsis ISA1 requires ISA2 as a partner for enzymatic function, whereas maize ISA1 was active by itself.
    Title: Distinct functional properties of isoamylase-type starch debranching enzymes in monocot and dicot leaves.
  3. The heteromultimeric debranching enzyme involved in starch synthesis in Arabidopsis requires both isoamylase1 and isoamylase2 subunits for complex stability and activity.
    Title: The heteromultimeric debranching enzyme involved in starch synthesis in Arabidopsis requires both isoamylase1 and isoamylase2 subunits for complex stability and activity.
  4. Data propose that ISA2 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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Homology

NM_100213.4
NM_202022.3

Gene Ontology Provided by TAIR

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

General protein information

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Preferred Names
debranching enzyme 1
NP_171830.1
  • debranching enzyme 1 (DBE1); FUNCTIONS IN: isoamylase activity, alpha-amylase activity; INVOLVED IN: carbohydrate metabolic process, amylopectin biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: 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 3 (TAIR:AT4G09020.1); Has 10041 Blast hits to 10011 proteins in 2123 species: Archae - 109; Bacteria - 8214; Metazoa - 136; Fungi - 197; Plants - 613; Viruses - 0; Other Eukaryotes - 772 (source: NCBI BLink).
NP_973751.1
  • debranching enzyme 1 (DBE1); FUNCTIONS IN: isoamylase activity, alpha-amylase activity; INVOLVED IN: carbohydrate metabolic process, amylopectin biosynthetic process; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: 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 3 (TAIR:AT4G09020.1); 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_003070.9 Reference assembly

    Range
    813413..816812
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_202022.3 → NP_973751.1  debranching enzyme 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_973751.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8L735, Q9ZVT2
    UniProtKB/TrEMBL
    A0A178WGA8, A0A5S9SDP3
    Conserved Domains (2) summary
    cd02856
    Location:233 → 368
    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)
    cd11346
    Location:360 → 751
    AmyAc_plant_IsoA; Alpha amylase catalytic domain family found in plant isoamylases

  2. NM_100213.4 → NP_171830.1  debranching enzyme 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_171830.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q8L735, Q9ZVT2
    UniProtKB/TrEMBL
    A0A178WGA8, A0A5S9SDP3
    Conserved Domains (2) summary
    cd02856
    Location:233 → 368
    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)
    cd11346
    Location:360 → 751
    AmyAc_plant_IsoA; Alpha amylase catalytic domain family found in plant isoamylases
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8L735.2

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