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    SHL1 PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830065, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SHL1
    Official Full Name
    PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein
    Primary source
    TAIR:AT4G39100
    Locus tag
    AT4G39100
    See related
    Araport:AT4G39100
    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
    short life; T22F8.2
    Summary
    Putative transcription factor containing a PHD finger and BAH motif, required for normal development
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    Genomic context

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    See SHL1 in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    5
    Sequence:
    Chromosome: 4; NC_003075.7 (18217629..18220324, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene vacuolar proton ATPase A3 Neighboring gene Papain family cysteine protease Neighboring gene miscRNA Neighboring gene Malectin/receptor-like protein kinase family 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. Dual recognition of H3K4me3 and H3K27me3 by a plant histone reader SHL. Qian S, et al. Nat Commun, 2018 Jun 21. PMID 29930355, Free PMC Article
    2. The Arabidopsis PHD-finger protein SHL is required for proper development and fertility. Müssig C, et al. Mol Gen Genet, 2000 Nov. PMID 11129039
    3. Chromatin-dependent repression of the Arabidopsis floral integrator genes involves plant specific PHD-containing proteins. López-González L, et al. Plant Cell, 2014 Oct. PMID 25281686, Free PMC Article
    4. A DEK domain-containing protein modulates chromatin structure and function in Arabidopsis. Waidmann S, et al. Plant Cell, 2014 Nov. PMID 25387881, Free PMC Article
    5. Proteome-wide screens for small ubiquitin-like modifier (SUMO) substrates identify Arabidopsis proteins implicated in diverse biological processes. Elrouby N, et al. Proc Natl Acad Sci U S A, 2010 Oct 5. PMID 20855607, Free PMC Article

    See all (8) citations in PubMed

    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_001204030.2
    NM_120070.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables chromatin binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables methylated histone binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables transcription cis-regulatory region binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in negative regulation of gene expression, epigenetic IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within post-embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in post-embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of photoperiodism, flowering IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vegetative to reproductive phase transition of meristem IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus 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 / bromo-adjacent homology (BAH) domain-containing protein
    NP_001190959.1
    • short life (SHL1); CONTAINS InterPro DOMAIN/s: Bromo adjacent homology (BAH) domain (InterPro:IPR001025); BEST Arabidopsis thaliana protein match is: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein (TAIR:AT4G22140.1).
    NP_568053.1
    • short life (SHL1); CONTAINS InterPro DOMAIN/s: Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Bromo adjacent homology (BAH) domain (InterPro:IPR001025), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein (TAIR:AT4G22140.2); 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_003075.7 Reference assembly

      Range
      18217629..18220324 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001204030.2 → NP_001190959.1  PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001190959.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4JV93
      Conserved Domains (1) summary
      cl02608
      Location:23 → 157
      BAH; or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in ...

    2. NM_120070.3 → NP_568053.1  PHD finger family protein / bromo-adjacent homology (BAH) domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_568053.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8L975, Q9FEN9, Q9SVI4
      UniProtKB/TrEMBL
      A0A178UWF3, A0A5S9XZY6, A0A654FWY5
      Conserved Domains (2) summary
      cl02608
      Location:23 → 157
      BAH; or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in ...
      cl22851
      Location:141 → 187
      PHD_SF; PHD finger superfamily
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FEN9.1

    Gene LinkOut

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