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    LDA limit dextrinase [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830315, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LDA
    Official Full Name
    limit dextrinase
    Primary source
    TAIR:AT5G04360
    Locus tag
    AT5G04360
    See related
    Araport:AT5G04360
    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
    ATLDA; ATPU1; limit dextrinase; LIMIT DEXTRINASE; PU1; PULLULANASE; PULLULANASE 1; T19N18.90; T19N18_90
    Summary
    Encodes an enzyme thought to be involved in the hydrolysis of the alpha-1,6 linkages during starch degradation in seed endosperm. However, a knockout mutant of Arabidopsis lacking limit dextrinase has normal rates of starch degradation in the leaf at night, indicating that more than one isoamylases might be involved in this process.
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    Genomic context

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    See LDA in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    29
    Sequence:
    Chromosome: 5; NC_003076.8 (1221448..1228841)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Plant self-incompatibility protein S1 family Neighboring gene Plant self-incompatibility protein S1 family Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA

    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. Mutants of Arabidopsis lacking a chloroplastic isoamylase accumulate phytoglycogen and an abnormal form of amylopectin. Wattebled F, et al. Plant Physiol, 2005 May. PMID 15849301, Free PMC Article
    2. Starch degradation. Smith AM, et al. Annu Rev Plant Biol, 2005. PMID 15862090
    3. 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
    4. 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
    5. AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins. Ferro M, et al. Mol Cell Proteomics, 2010 Jun. PMID 20061580, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    NM_001342767.1
    NM_120518.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables limit dextrinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables pullulanase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in starch biosynthetic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within starch biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 
    acts_upstream_of_or_within starch catabolic process TAS
    Traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast stroma HDA PubMed 
    located_in plasma membrane ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    limit dextrinase
    NP_196056.2
    • limit dextrinase (LDA); FUNCTIONS IN: limit dextrinase activity, pullulanase activity, alpha-amylase activity; INVOLVED IN: starch biosynthetic process, carbohydrate metabolic process, starch catabolic process; LOCATED IN: chloroplast; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Alpha-1,6-glucosidases, pullulanase-type (InterPro:IPR011839), Immunoglobulin E-set (InterPro:IPR014756), Glycoside hydrolase, family 13, N-terminal (InterPro:IPR004193), 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 6260 Blast hits to 6253 proteins in 1613 species: Archae - 73; Bacteria - 5462; Metazoa - 45; Fungi - 1; Plants - 262; Viruses - 0; Other Eukaryotes - 417 (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
      1221448..1228841
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_120518.5 → NP_196056.2  limit dextrinase [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196056.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8GTR4
      UniProtKB/TrEMBL
      A0A5S9Y1V8, A0A654FYB2
      Conserved Domains (4) summary
      cd02860
      Location:206 → 307
      E_set_Pullulanase; Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase)
      cd11341
      Location:332 → 796
      AmyAc_Pullulanase_LD-like; Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins
      PLN02877
      Location:1 → 963
      PLN02877; alpha-amylase/limit dextrinase
      pfam11852
      Location:793 → 961
      DUF3372; Domain of unknown function (DUF3372)

    2. NM_001342767.1 → NP_001330089.1  limit dextrinase [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8GTR4
      UniProtKB/TrEMBL
      A0A5S9Y1V8, A0A654FYB2
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8GTR4.2

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