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    PDF1A peptide deformylase 1A [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 838109, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PDF1A
    Official Full Name
    peptide deformylase 1A
    Primary source
    TAIR:AT1G15390
    Locus tag
    AT1G15390
    See related
    Araport:AT1G15390
    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
    ATDEF1; peptide deformylase 1A
    Summary
    encodes a peptide deformylase-like protein. Removes N-formyl groups, a prerequisite for the action of methionine aminopeptidase during protein synthesis. Targeted to mitochondria. Requires Zn for catalysis.
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    Genomic context

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    See PDF1A in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    3
    Sequence:
    Chromosome: 1; NC_003070.9 (5294629..5295931)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene Lactoylglutathione lyase / glyoxalase I family protein Neighboring gene cotton fiber protein Neighboring gene uncharacterized protein Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene aspartate-glutamate racemase family Neighboring gene late embryogenesis abundant-like protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Distinctive features of the two classes of eukaryotic peptide deformylases. Serero A, et al. J Mol Biol, 2001 Dec 7. PMID 11733990
    2. The crystal structure of mitochondrial (Type 1A) peptide deformylase provides clear guidelines for the design of inhibitors specific for the bacterial forms. Fieulaine S, et al. J Biol Chem, 2005 Dec 23. PMID 16192279
    3. Interplay between N-terminal methionine excision and FtsH protease is essential for normal chloroplast development and function in Arabidopsis. Adam Z, et al. Plant Cell, 2011 Oct. PMID 22010036, Free PMC Article
    4. Identification of eukaryotic peptide deformylases reveals universality of N-terminal protein processing mechanisms. Giglione C, et al. EMBO J, 2000 Nov 1. PMID 11060042, Free PMC Article
    5. Heterogeneity of the mitochondrial proteome for photosynthetic and non-photosynthetic Arabidopsis metabolism. Lee CP, et al. Mol Cell Proteomics, 2008 Jul. PMID 18385124

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. PDF1a and Ftsh2 do not operate in the same pathway.
      Title: Interplay between N-terminal methionine excision and FtsH protease is essential for normal chloroplast development and function in Arabidopsis.
    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_101408.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables peptide deformylase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within co-translational protein modification IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in mitochondrion ISM
    Inferred from Sequence Model
    more info
    		  
    located_in plant-type cell wall HDA PubMed 

    General protein information

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    Preferred Names
    peptide deformylase 1A
    NP_563974.1
    • peptide deformylase 1A (PDF1A); FUNCTIONS IN: peptide deformylase activity; INVOLVED IN: translation, co-translational protein modification; LOCATED IN: mitochondrion, chloroplast, plant-type cell wall; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Formylmethionine deformylase (InterPro:IPR000181); BEST Arabidopsis thaliana protein match is: peptide deformylase 1B (TAIR:AT5G14660.2); Has 10999 Blast hits to 10999 proteins in 2667 species: Archae - 4; Bacteria - 8033; Metazoa - 124; Fungi - 0; Plants - 109; Viruses - 2; Other Eukaryotes - 2727 (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_003070.9 Reference assembly

      Range
      5294629..5295931
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_101408.3 → NP_563974.1  peptide deformylase 1A [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_563974.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9FV53, Q9XI30
      UniProtKB/TrEMBL
      A0A178WDP8, A0A5S9UI76, A0A654EA07
      Conserved Domains (1) summary
      cd00487
      Location:83 → 240
      Pep_deformylase; Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II) ...
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FV53.3

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