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    Pectin lyase-like superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 825384, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Pectin lyase-like superfamily protein
    Primary source
    TAIR:AT3G62110
    Locus tag
    AT3G62110
    See related
    Araport:AT3G62110
    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
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    7
    Sequence:
    Chromosome: 3; NC_003074.8 (22997021..23000221, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene SNF7 family protein Neighboring gene ncRNA Neighboring gene phytochrome interacting factor 3-like 2 Neighboring gene indole-3-acetic acid inducible 30 Neighboring gene Class II aaRS and biotin synthetases superfamily protein Neighboring gene Pyridoxal phosphate (PLP)-dependent transferases superfamily 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. Biochemical characterization of Arabidopsis clade F polygalacturonase shows a substrate preference toward oligogalacturonic acids. Ohashi T, et al. J Biosci Bioeng, 2022 Jan. PMID 34690060
    2. The vegetative vacuole proteome of Arabidopsis thaliana reveals predicted and unexpected proteins. Carter C, et al. Plant Cell, 2004 Dec. PMID 15539469, Free PMC Article
    3. 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

    General gene information

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    Homology

    NM_001340139.1
    NM_116076.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables polygalacturonase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables polygalacturonase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type vacuole HDA PubMed 

    General protein information

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    Preferred Names
    Pectin lyase-like superfamily protein
    NP_567126.1
    • Pectin lyase-like superfamily protein; FUNCTIONS IN: polygalacturonase activity; INVOLVED IN: response to cyclopentenone, carbohydrate metabolic process; LOCATED IN: vacuole; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), Glycoside hydrolase, family 28 (InterPro:IPR000743), Pectin lyase fold (InterPro:IPR012334), Parallel beta-helix repeat (InterPro:IPR006626); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT4G23500.1); 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_003074.8 Reference assembly

      Range
      22997021..23000221 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_116076.4 → NP_567126.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_567126.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFI8, A0A654FJY5, Q9FPJ2
      Conserved Domains (1) summary
      COG5434
      Location:43 → 362
      Pgu1; Polygalacturonase [Carbohydrate transport and metabolism]

    2. NM_001340139.1 → NP_001326987.1  Pectin lyase-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFI8, A0A654FJY5, Q9FPJ2
      Conserved Domains (1) summary
      COG5434
      Location:43 → 362
      Pgu1; Polygalacturonase [Carbohydrate transport and metabolism]
    Nucleotide Protein
    Heading Accession and Version

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