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    PHD finger family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 832339, updated on 18-Sep-2024

    Summary

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    Official Full Name
    PHD finger family protein
    Primary source
    TAIR:AT5G22760
    Locus tag
    AT5G22760
    See related
    Araport:AT5G22760
    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
    MDJ22.18; MDJ22_18
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    8
    Sequence:
    Chromosome: 5; NC_003076.8 (7571175..7577993)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene cellulose synthase-like A02 Neighboring gene DNA/RNA helicase protein Neighboring gene uncharacterized protein Neighboring gene alpha-adaptin Neighboring gene ncRNA Neighboring gene Adaptor protein complex AP-2, alpha subunit Neighboring gene uncharacterized 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. Dual Recognition of H3K4me3 and DNA by the ISWI Component ARID5 Regulates the Floral Transition in Arabidopsis. Tan LM, et al. Plant Cell, 2020 Jul. PMID 32358072, Free PMC Article
    2. A plant-specific SWR1 chromatin-remodeling complex couples histone H2A.Z deposition with nucleosome sliding. Luo YX, et al. EMBO J, 2020 Apr 1. PMID 32115743, Free PMC Article
    3. 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_001343760.1
    NM_122182.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of ISWI-type complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    PHD finger family protein
    NP_197668.2
    • PHD finger family protein; FUNCTIONS IN: DNA binding, zinc ion binding; INVOLVED IN: regulation of transcription, DNA-dependent; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 14 growth stages; CONTAINS InterPro DOMAIN/s: DDT domain (InterPro:IPR004022), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), EF-Hand 1, calcium-binding site (InterPro:IPR018247), Zinc finger, PHD-type (InterPro:IPR001965), DDT domain superfamily (InterPro:IPR018501), DDT domain, subgroup (InterPro:IPR018500), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: metalloendopeptidases;zinc ion binding;DNA binding (TAIR:AT5G35210.2); Has 3640 Blast hits to 3265 proteins in 204 species: Archae - 0; Bacteria - 0; Metazoa - 2369; Fungi - 398; Plants - 598; Viruses - 0; Other Eukaryotes - 275 (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
      7571175..7577993
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001343759.1 → NP_001332280.1  PHD finger family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BGG5

    2. NM_122182.3 → NP_197668.2  PHD finger family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_197668.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178U8P2, A0A5S9Y6W8, A0A7G2F9M6, F4KBB1
      Conserved Domains (6) summary
      smart00571
      Location:186 → 246
      DDT; domain in different transcription and chromosome remodeling factors
      cd15489
      Location:1244 → 1291
      PHD_SF; PHD finger superfamily
      pfam15612
      Location:291 → 333
      WHIM1; WSTF, HB1, Itc1p, MBD9 motif 1
      cd20401
      Location:44 → 92
      Tudor_AtPTM-like; Tudor domain found in Arabidopsis thaliana DDT domain-containing protein PTM (AtPTM), Dirigent protein 17 (AtDIR17), and similar proteins
      cl00040
      Location:1512 → 1542
      C1; protein kinase C conserved region 1 (C1 domain) superfamily
      cl22851
      Location:416 → 457
      PHD_SF; PHD finger superfamily

    3. NM_001343760.1 → NP_001332279.1  PHD finger family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178U8P2, A0A1P8BGE8, A0A5S9Y6W8
    Nucleotide Protein
    Heading Accession and Version

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