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    glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 817877, updated on 18-Sep-2024

    Summary

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    Official Full Name
    glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein
    Primary source
    TAIR:AT2G33160
    Locus tag
    AT2G33160
    See related
    Araport:AT2G33160
    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
    F25I18.10; F25I18_10; NIMNA (Sanskrit for '''sunken'' or ''low''); NMA
    Summary
    Gene structure annotation for AT2G33160.1 is inaccurate in TAIR10, see PMID:23709666 and Comments field on the locus page for updated annotation.
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    Genomic context

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    Location:
    chromosome: 2
    Exon count:
    3
    Sequence:
    Chromosome: 2; NC_003071.7 (14053404..14056246)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene tRNA-Met Neighboring gene peroxisomal 3-ketoacyl-CoA thiolase 3 Neighboring gene Leucine-rich repeat receptor-like protein kinase family protein Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Suspensor length determines developmental progression of the embryo in Arabidopsis. Babu Y, et al. Plant Physiol, 2013 Jul. PMID 23709666, Free PMC Article
    2. Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana. Lin X, et al. Nature, 1999 Dec 16. PMID 10617197

    GeneRIFs: Gene References Into Functions

    General gene information

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    NM_128875.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables RNA-DNA hybrid ribonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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
    		  
    acts_upstream_of_or_within embryo development ending in seed dormancy IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within suspensor development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within zygote elongation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type cell wall IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein
    NP_180874.1
    • glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein; FUNCTIONS IN: polygalacturonase activity, nucleic acid binding; INVOLVED IN: carbohydrate metabolic process; LOCATED IN: endomembrane system; CONTAINS InterPro DOMAIN/s: Pectin lyase fold/virulence factor (InterPro:IPR011050), Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), Pectin lyase fold (InterPro:IPR012334), Glycoside hydrolase, family 28 (InterPro:IPR000743), Parallel beta-helix repeat (InterPro:IPR006626); BEST Arabidopsis thaliana protein match is: Pectin lyase-like superfamily protein (TAIR:AT1G43080.1); Has 4055 Blast hits to 4034 proteins in 453 species: Archae - 8; Bacteria - 853; Metazoa - 14; Fungi - 1250; Plants - 1822; Viruses - 0; Other Eukaryotes - 108 (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_003071.7 Reference assembly

      Range
      14053404..14056246
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_128875.1 → NP_180874.1  glycoside hydrolase family 28 protein / polygalacturonase (pectinase) family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_180874.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9X3G3, A0A654EZU1, O49319
      Conserved Domains (2) summary
      pfam13456
      Location:514 → 633
      RVT_3; Reverse transcriptase-like
      cl19188
      Location:1 → 402
      PL-6; Polysaccharide Lyase Family 6
    Nucleotide Protein
    Heading Accession and Version

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