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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

Gene LinkOut

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