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    TRAF-like superfamily protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820368, updated on 18-Sep-2024

    Summary

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    Official Full Name
    TRAF-like superfamily protein
    Primary source
    TAIR:AT3G11950
    Locus tag
    AT3G11950
    See related
    Araport:AT3G11950
    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
    Summary
    publications Tian et al (2007) and Sadre et al (2006) refer to At3g11950. The prenyltransferase gene studied is actually At3g11945 which arises from a split of the previous At3g11950 gene model.
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    Genomic context

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    Location:
    chromosome: 3
    Exon count:
    4
    Sequence:
    Chromosome: 3; NC_003074.8 (3783087..3785664, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ribosomal protein 5A Neighboring gene homogentisate prenyltransferase Neighboring gene Cleavage and polyadenylation specificity factor (CPSF) A subunit protein Neighboring gene RIBOSOMAL RNA PROCESSING 5

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The pds2 mutation is a lesion in the Arabidopsis homogentisate solanesyltransferase gene involved in plastoquinone biosynthesis. Tian L, et al. Planta, 2007 Sep. PMID 17569077
    2. Proteomics of the chloroplast envelope membranes from Arabidopsis thaliana. Ferro M, et al. Mol Cell Proteomics, 2003 May. PMID 12766230
    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. Sorting signals, N-terminal modifications and abundance of the chloroplast proteome. Zybailov B, et al. PLoS One, 2008 Apr 23. PMID 18431481, Free PMC Article
    5. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. molecular basis for the pds2 mutation is an in-frame 6 bp (2 aa) deletion in this gene
      Title: The pds2 mutation is a lesion in the Arabidopsis homogentisate solanesyltransferase gene involved in plastoquinone biosynthesis.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    NM_001202936.2
    NM_001337963.1
    NM_001337964.1
    NM_001337965.1
    NM_112028.5

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in chloroplast HDA PubMed 
    located_in chloroplast envelope HDA PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    TRAF-like superfamily protein
    NP_001189865.1
    • TRAF-like superfamily protein; FUNCTIONS IN: prenyltransferase activity, zinc ion binding; CONTAINS InterPro DOMAIN/s: Zinc finger, TRAF-type (InterPro:IPR001293), TRAF-like (InterPro:IPR008974).
    NP_187801.3
    • TRAF-like superfamily protein; FUNCTIONS IN: prenyltransferase activity, zinc ion binding; LOCATED IN: chloroplast, chloroplast envelope; CONTAINS InterPro DOMAIN/s: Zinc finger, TRAF-type (InterPro:IPR001293), TRAF-like (InterPro:IPR008974); Has 15053 Blast hits to 10174 proteins in 1128 species: Archae - 119; Bacteria - 2147; Metazoa - 5510; Fungi - 1379; Plants - 699; Viruses - 108; Other Eukaryotes - 5091 (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_003074.8 Reference assembly

      Range
      3783087..3785664 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_112028.5 → NP_187801.3  TRAF-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_187801.3

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFP3, A0A384L4W9, Q9SF04
      Conserved Domains (2) summary
      PTZ00121
      Location:288 → 558
      PTZ00121; MAEBL; Provisional
      cl40617
      Location:212 → 270
      zf-TRAF; TRAF-type zinc finger

    2. NM_001202936.2 → NP_001189865.1  TRAF-like superfamily protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189865.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFP3, A0A384L4W9, Q9SF04
      Conserved Domains (2) summary
      PTZ00121
      Location:288 → 558
      PTZ00121; MAEBL; Provisional
      cl40617
      Location:212 → 270
      zf-TRAF; TRAF-type zinc finger

    3. NM_001337964.1 → NP_001326500.1  TRAF-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFP3, A0A384L4W9, Q9SF04
      Conserved Domains (2) summary
      PTZ00121
      Location:288 → 558
      PTZ00121; MAEBL; Provisional
      cl40617
      Location:212 → 270
      zf-TRAF; TRAF-type zinc finger

    4. NM_001337963.1 → NP_001326499.1  TRAF-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFP3, A0A384L4W9, Q9SF04
      Conserved Domains (2) summary
      PTZ00121
      Location:288 → 558
      PTZ00121; MAEBL; Provisional
      cl40617
      Location:212 → 270
      zf-TRAF; TRAF-type zinc finger

    5. NM_001337965.1 → NP_001326501.1  TRAF-like superfamily protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VFP3, A0A384L4W9, Q9SF04
      Conserved Domains (2) summary
      PTZ00121
      Location:288 → 558
      PTZ00121; MAEBL; Provisional
      cl40617
      Location:212 → 270
      zf-TRAF; TRAF-type zinc finger
    Nucleotide Protein
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