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    HCF109 high chlorophyll fluorescent 109 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 833614, updated on 18-Sep-2024

    Summary

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    Official Symbol
    HCF109
    Official Full Name
    high chlorophyll fluorescent 109
    Primary source
    TAIR:AT5G36170
    Locus tag
    AT5G36170
    See related
    Araport:AT5G36170
    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
    ATPRFB; high chlorophyll fluorescent 109; MAB16.12; MAB16_12; PEPTIDE RELEASE FACTOR 2
    Summary
    Required for normal processing of polycistronic plastidial transcripts
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    Genomic context

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    See HCF109 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    7
    Sequence:
    Chromosome: 5; NC_003076.8 (14235835..14238072, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene Tyrosine transaminase family protein Neighboring gene serine carboxypeptidase-like 1 Neighboring gene miscRNA Neighboring gene F-box protein interaction domain 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. A peptide chain release factor 2 affects the stability of UGA-containing transcripts in Arabidopsis chloroplasts. Meurer J, et al. Plant Cell, 2002 Dec. PMID 12468741, Free PMC Article
    2. A nuclear mutant of Arabidopsis with impaired stability on distinct transcripts of the plastid psbB, psbD/C, ndhH, and ndhC operons. Meurer J, et al. Plant Cell, 1996 Jul. PMID 8768377, Free PMC Article
    3. AT_CHLORO, a comprehensive chloroplast proteome database with subplastidial localization and curated information on envelope proteins. Ferro M, et al. Mol Cell Proteomics, 2010 Jun. PMID 20061580, Free PMC Article
    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

    General gene information

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    NM_001344128.1
    NM_123008.3
    NM_180765.2
    NM_180766.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables translation release factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables translation release factor activity, codon specific IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA processing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within plastid organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in translational termination IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within translational termination 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 ISM
    Inferred from Sequence Model
    more info
    		  
    located_in chloroplast stroma HDA PubMed 

    General protein information

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    Preferred Names
    high chlorophyll fluorescent 109
    NP_198466.2
    • high chlorophyll fluorescent 109 (HCF109); FUNCTIONS IN: translation release factor activity, codon specific, translation release factor activity; INVOLVED IN: translational termination, plastid organization, RNA processing; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Class I peptide chain release factor (InterPro:IPR000352), Peptide chain release factor 2 (InterPro:IPR004374), Peptide chain release factor (InterPro:IPR005139); BEST Arabidopsis thaliana protein match is: Peptide chain release factor 2 (TAIR:AT1G56350.1); Has 16243 Blast hits to 16243 proteins in 2786 species: Archae - 5; Bacteria - 10390; Metazoa - 230; Fungi - 206; Plants - 192; Viruses - 0; Other Eukaryotes - 5220 (source: NCBI BLink).
    NP_851096.1
    • high chlorophyll fluorescent 109 (HCF109); FUNCTIONS IN: translation release factor activity, codon specific, translation release factor activity; INVOLVED IN: translational termination, plastid organization, RNA processing; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Class I peptide chain release factor (InterPro:IPR000352), Peptide chain release factor 2 (InterPro:IPR004374), Peptide chain release factor (InterPro:IPR005139); BEST Arabidopsis thaliana protein match is: Peptide chain release factor 2 (TAIR:AT1G56350.1); Has 17252 Blast hits to 17250 proteins in 2824 species: Archae - 5; Bacteria - 10710; Metazoa - 293; Fungi - 251; Plants - 224; Viruses - 14; Other Eukaryotes - 5755 (source: NCBI BLink).
    NP_851097.1
    • high chlorophyll fluorescent 109 (HCF109); FUNCTIONS IN: translation release factor activity, codon specific, translation release factor activity; INVOLVED IN: translational termination, plastid organization, RNA processing; LOCATED IN: chloroplast; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Class I peptide chain release factor (InterPro:IPR000352), Peptide chain release factor 2 (InterPro:IPR004374), Peptide chain release factor (InterPro:IPR005139); BEST Arabidopsis thaliana protein match is: Peptide chain release factor 2 (TAIR:AT1G56350.1); Has 17253 Blast hits to 17251 proteins in 2824 species: Archae - 5; Bacteria - 10708; Metazoa - 294; Fungi - 253; Plants - 224; Viruses - 14; Other Eukaryotes - 5755 (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
      14235835..14238072 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_180765.2 → NP_851096.1  high chlorophyll fluorescent 109 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851096.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9C5B2, Q9LVY0
      UniProtKB/TrEMBL
      A0A178UGY5, A0A5S9Y8F4
      Conserved Domains (1) summary
      PRK00578
      Location:82 → 445
      prfB; peptide chain release factor 2; Validated

    2. NM_123008.3 → NP_198466.2  high chlorophyll fluorescent 109 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_198466.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4K2X9
      Conserved Domains (2) summary
      pfam00472
      Location:312 → 356
      RF-1; RF-1 domain
      pfam03462
      Location:114 → 299
      PCRF; PCRF domain

    3. NM_180766.1 → NP_851097.1  high chlorophyll fluorescent 109 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_851097.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UH07, A0A5S9Y8F4
      Conserved Domains (3) summary
      PRK00578
      Location:81 → 444
      prfB; peptide chain release factor 2; Validated
      pfam00472
      Location:311 → 415
      RF-1; RF-1 domain
      pfam03462
      Location:113 → 298
      PCRF; PCRF domain

    4. NM_001344128.1 → NP_001332421.1  high chlorophyll fluorescent 109 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BGW0
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LVY0.1

    Gene LinkOut

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