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    PHD-finger and DNA binding domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831115, updated on 18-Sep-2024

    Summary

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    Official Full Name
    PHD-finger and DNA binding domain-containing protein
    Primary source
    TAIR:AT5G12400
    Locus tag
    AT5G12400
    See related
    Araport:AT5G12400
    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
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    Genomic context

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    Location:
    chromosome: 5
    Exon count:
    9
    Sequence:
    Chromosome: 5; NC_003076.8 (4013424..4021591)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene annexin 8 Neighboring gene Tetratricopeptide repeat (TPR)-like superfamily protein Neighboring gene ncRNA Neighboring gene THUMP domain-containing protein Neighboring gene O-acyltransferase (WSD1-like) family 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 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
    2. 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_121278.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 and DNA binding domain-containing protein
    NP_568273.2
    • DNA binding;zinc ion binding;DNA binding; FUNCTIONS IN: DNA binding, zinc ion binding; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 18 plant structures; EXPRESSED DURING: 9 growth stages; CONTAINS InterPro DOMAIN/s: AT hook, DNA-binding motif (InterPro:IPR017956), DDT domain (InterPro:IPR004022), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), 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: PHD finger family protein (TAIR:AT5G22760.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (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
      4013424..4021591
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121278.3 → NP_568273.2  PHD-finger and DNA binding domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568273.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178UH93, F4K0Y2
      Conserved Domains (4) summary
      smart00249
      Location:1535 → 1582
      PHD; PHD zinc finger
      cd15532
      Location:611 → 652
      PHD2_CHD_II; PHD finger 2 found in class II Chromodomain-Helicase-DNA binding (CHD) proteins
      pfam02791
      Location:415 → 469
      DDT; DDT domain
      cl21522
      Location:933 → 995
      FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...
    Nucleotide Protein
    Heading Accession and Version

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