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    PDF2.5 Scorpion toxin-like knottin superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836486, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PDF2.5
    Official Full Name
    Scorpion toxin-like knottin superfamily protein
    Primary source
    TAIR:AT5G63660
    Locus tag
    AT5G63660
    See related
    Araport:AT5G63660
    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
    LCR74; LOW-MOLECULAR-WEIGHT CYSTEINE-RICH 74; MBK5.14; MBK5_14
    Summary
    Predicted to encode a PR (pathogenesis-related) protein. Belongs to the plant defensin (PDF) family with the following members: At1g75830/PDF1.1, At5g44420/PDF1.2a, At2g26020/PDF1.2b, At5g44430/PDF1.2c, At2g26010/PDF1.3, At1g19610/PDF1.4, At1g55010/PDF1.5, At2g02120/PDF2.1, At2g02100/PDF2.2, At2g02130/PDF2.3, At1g61070/PDF2.4, At5g63660/PDF2.5, At2g02140/PDF2.6, At5g38330/PDF3.1 and At4g30070/PDF3.2.
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    Genomic context

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    See PDF2.5 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    2
    Sequence:
    Chromosome: 5; NC_003076.8 (25485486..25486324)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene P-loop containing nucleoside triphosphate hydrolases superfamily protein Neighboring gene ENTH/VHS/GAT family protein Neighboring gene SNF1-related protein kinase 2.5 Neighboring gene SPT4 homolog 2 Neighboring gene Pyruvate kinase family protein

    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. The Arabidopsis defensin gene AtPDF2.5 mediates cadmium tolerance and accumulation. Luo JS, et al. Plant Cell Environ, 2019 Sep. PMID 31115921
    2. A putative novel role for plant defensins: a defensin from the zinc hyper-accumulating plant, Arabidopsis halleri, confers zinc tolerance. Mirouze M, et al. Plant J, 2006 Aug. PMID 16792695
    3. Plant pathogenesis-related (PR) proteins: a focus on PR peptides. Sels J, et al. Plant Physiol Biochem, 2008 Nov. PMID 18674922
    4. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. eight cysteine residues essential for mediating Cd tolerance and chelation
      Title: The Arabidopsis defensin gene AtPDF2.5 mediates cadmium tolerance and accumulation.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within defense response ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Scorpion toxin-like knottin superfamily protein
    NP_201171.1
    • PDF2.5; INVOLVED IN: defense response; LOCATED IN: endomembrane system; EXPRESSED IN: embryo, root, flower, seed; EXPRESSED DURING: petal differentiation and expansion stage, E expanded cotyledon stage, D bilateral stage; CONTAINS InterPro DOMAIN/s: Gamma thionin (InterPro:IPR008176), Knottin (InterPro:IPR003614), Gamma Purothionin (InterPro:IPR008177); BEST Arabidopsis thaliana protein match is: low-molecular-weight cysteine-rich 68 (TAIR:AT2G02130.1); Has 396 Blast hits to 396 proteins in 83 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 396; Viruses - 0; Other Eukaryotes - 0 (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
      25485486..25486324
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_125761.2 → NP_201171.1  Scorpion toxin-like knottin superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_201171.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P82783, Q9FFP8
      UniProtKB/TrEMBL
      A0A178UD76, A0A5S9YGY9
      Conserved Domains (1) summary
      pfam00304
      Location:30 → 73
      Gamma-thionin; Gamma-thionin family
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FFP8.1

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