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    PHD finger protein-like protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 828485, updated on 18-Sep-2024

    Summary

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    Official Full Name
    PHD finger protein-like protein
    Primary source
    TAIR:AT4G23860
    Locus tag
    AT4G23860
    See related
    Araport:AT4G23860
    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
    T32A16.30; T32A16_30
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    Genomic context

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    Location:
    chromosome: 4
    Exon count:
    6
    Sequence:
    Chromosome: 4; NC_003075.7 (12408950..12411678)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene Pectin lyase-like superfamily protein Neighboring gene Leucine-rich repeat (LRR) family protein Neighboring gene AMP-dependent synthetase and ligase family protein Neighboring gene miscRNA 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. High-throughput protein localization in Arabidopsis using Agrobacterium-mediated transient expression of GFP-ORF fusions. Koroleva OA, et al. Plant J, 2005 Jan. PMID 15610358
    2. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    3. 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

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001084967.2
    NM_001341633.1
    NM_118517.6
    NM_202871.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables ubiquitin protein ligase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm HDA PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger protein-like protein
    NP_001078436.1
    • PHD finger protein-related; FUNCTIONS IN: ubiquitin-protein ligase activity, zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: cytoplasm; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, N-recognin (InterPro:IPR003126); Has 484 Blast hits to 449 proteins in 164 species: Archae - 0; Bacteria - 2; Metazoa - 240; Fungi - 124; Plants - 56; Viruses - 0; Other Eukaryotes - 62 (source: NCBI BLink).
    NP_194117.3
    • PHD finger protein-related; FUNCTIONS IN: ubiquitin-protein ligase activity, zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: cytoplasm; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, N-recognin (InterPro:IPR003126); Has 484 Blast hits to 449 proteins in 164 species: Archae - 0; Bacteria - 2; Metazoa - 240; Fungi - 124; Plants - 56; Viruses - 0; Other Eukaryotes - 62 (source: NCBI BLink).
    NP_974600.1
    • PHD finger protein-related; FUNCTIONS IN: ubiquitin-protein ligase activity, zinc ion binding; INVOLVED IN: biological_process unknown; LOCATED IN: cytoplasm; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Zinc finger, PHD-type (InterPro:IPR001965), Zinc finger, N-recognin (InterPro:IPR003126); Has 35333 Blast hits to 34131 proteins in 2444 species: Archae - 798; Bacteria - 22429; Metazoa - 974; Fungi - 991; Plants - 531; Viruses - 0; Other Eukaryotes - 9610 (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
      12408950..12411678
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001084967.2 → NP_001078436.1  PHD finger protein-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078436.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9XVM8, A0A654FSB1, C0SVJ2
      Conserved Domains (2) summary
      cd15542
      Location:128 → 191
      PHD_UBR7; PHD finger found in putative E3 ubiquitin-protein ligase UBR7
      pfam02207
      Location:52 → 107
      zf-UBR; Putative zinc finger in N-recognin (UBR box)

    2. NM_118517.6 → NP_194117.3  PHD finger protein-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_194117.3

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9XVM8, A0A654FSB1, C0SVJ2
      Conserved Domains (2) summary
      cd15542
      Location:128 → 191
      PHD_UBR7; PHD finger found in putative E3 ubiquitin-protein ligase UBR7
      pfam02207
      Location:52 → 107
      zf-UBR; Putative zinc finger in N-recognin (UBR box)

    3. NM_202871.3 → NP_974600.1  PHD finger protein-like protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_974600.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9XVM8, A0A654FSB1, C0SVJ2
      Conserved Domains (2) summary
      cd15542
      Location:128 → 191
      PHD_UBR7; PHD finger found in putative E3 ubiquitin-protein ligase UBR7
      pfam02207
      Location:52 → 107
      zf-UBR; Putative zinc finger in N-recognin (UBR box)

    4. NM_001341633.1 → NP_001329017.1  PHD finger protein-like protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178V2R7, A0A1P8B6F6
    Nucleotide Protein
    Heading Accession and Version

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