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    Pentatricopeptide repeat (PPR) superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 827584, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Pentatricopeptide repeat (PPR) superfamily protein
    Primary source
    TAIR:AT4G18520
    Locus tag
    AT4G18520
    See related
    Araport:AT4G18520
    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
    F28J12.180; F28J12_180; SEEDLING LETHAL 1; SEL1
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    1
    Sequence:
    Chromosome: 4; NC_003075.7 (10215096..10217214, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene CLAVATA3/ESR-related 2 Neighboring gene lysine ketoglutarate reductase trans-splicing-like protein, putative (DUF707) Neighboring gene uncharacterized protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003075.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Seedling Lethal1, a pentatricopeptide repeat protein lacking an E/E+ or DYW domain in Arabidopsis, is involved in plastid gene expression and early chloroplast development. Pyo YJ, et al. Plant Physiol, 2013 Dec. PMID 24144791, Free PMC Article
    2. PPR protein PDM1/SEL1 is involved in RNA editing and splicing of plastid genes in Arabidopsis thaliana. Zhang HD, et al. Photosynth Res, 2015 Dec. PMID 26123918
    3. Discovering the RNA-Binding Proteome of Plant Leaves with an Improved RNA Interactome Capture Method. Bach-Pages M, et al. Biomolecules, 2020 Apr 24. PMID 32344669, Free PMC Article
    4. Sequence and analysis of chromosome 4 of the plant Arabidopsis thaliana. Mayer K, et al. Nature, 1999 Dec 16. PMID 10617198

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PDM1 is involved in RNA editing and splicing. Therefore, PDM1 is an important protein for post-transcriptional regulation in chloroplast.
      Title: PPR protein PDM1/SEL1 is involved in RNA editing and splicing of plastid genes in Arabidopsis thaliana.
    2. SEL1 is involved in the regulation of plastid gene expression required for normal chloroplast development.[SEL1]
      Title: Seedling Lethal1, a pentatricopeptide repeat protein lacking an E/E+ or DYW domain in Arabidopsis, is involved in plastid gene expression and early chloroplast development.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_117966.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables mRNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA splicing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within chloroplast RNA modification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in chloroplast IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Pentatricopeptide repeat (PPR) superfamily protein
    NP_193587.4
    • Pentatricopeptide repeat (PPR) superfamily protein; CONTAINS InterPro DOMAIN/s: Pentatricopeptide repeat (InterPro:IPR002885); BEST Arabidopsis thaliana protein match is: Tetratricopeptide repeat (TPR)-like superfamily protein (TAIR:AT4G39530.1); Has 48062 Blast hits to 12645 proteins in 202 species: Archae - 0; Bacteria - 8; Metazoa - 107; Fungi - 40; Plants - 47280; Viruses - 0; Other Eukaryotes - 627 (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_003075.7 Reference assembly

      Range
      10215096..10217214 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_117966.5 → NP_193587.4  Pentatricopeptide repeat (PPR) superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_193587.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      O49520, Q0WNP3
      UniProtKB/TrEMBL
      A0A178V439, A0A5S9XTQ2
      Conserved Domains (2) summary
      PLN03077
      Location:88 → 598
      PLN03077; Protein ECB2; Provisional
      sd00004
      Location:453 → 480
      PPR; PPR repeat [structural motif]
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q0WNP3.1

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