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    PHYE phytochrome E [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 827538, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PHYE
    Official Full Name
    phytochrome E
    Primary source
    TAIR:AT4G18130
    Locus tag
    AT4G18130
    See related
    Araport:AT4G18130
    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
    F15J5.100; F15J5_100; phytochrome E; PHYTOCHROME E
    Summary
    member of Histidine Kinase
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    Genomic context

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    See PHYE in Genome Data Viewer
    Location:
    chromosome: 4
    Exon count:
    4
    Sequence:
    Chromosome: 4; NC_003075.7 (10042137..10046346, complement)

    Chromosome 4 - NC_003075.7Genomic Context describing neighboring genes Neighboring gene RING/U-box superfamily protein Neighboring gene miscRNA Neighboring gene SCP1-like small phosphatase 4b Neighboring gene Serine/Threonine-kinase, putative (DUF1296) Neighboring gene Ca2+ activated outward rectifying K+ channel 6

    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. Bottom-up Assembly of the Phytochrome Network. Sánchez-Lamas M, et al. PLoS Genet, 2016 Nov. PMID 27820825, Free PMC Article
    2. Arabidopsis PHYTOCHROME INTERACTING FACTOR proteins promote phytochrome B polyubiquitination by COP1 E3 ligase in the nucleus. Jang IC, et al. Plant Cell, 2010 Jul. PMID 20605855, Free PMC Article
    3. Heterodimerization of type II phytochromes in Arabidopsis. Sharrock RA, et al. Proc Natl Acad Sci U S A, 2004 Aug 3. PMID 15273290, Free PMC Article
    4. Obligate heterodimerization of Arabidopsis phytochromes C and E and interaction with the PIF3 basic helix-loop-helix transcription factor. Clack T, et al. Plant Cell, 2009 Mar. PMID 19286967, Free PMC Article
    5. PCH1 integrates circadian and light-signaling pathways to control photoperiod-responsive growth in Arabidopsis. Huang H, et al. Elife, 2016 Feb 3. PMID 26839287, Free PMC Article

    See all (7) 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_117923.8

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables phosphorelay sensor kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein histidine kinase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables protein homodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in detection of visible light IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in red, far-red light phototransduction IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in plasma membrane ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    phytochrome E
    NP_193547.4
    • phytochrome E (PHYE); FUNCTIONS IN: protein histidine kinase activity, G-protein coupled photoreceptor activity, signal transducer activity; INVOLVED IN: in 8 processes; LOCATED IN: membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Phytochrome, central region (InterPro:IPR013515), Signal transduction histidine kinase, core (InterPro:IPR005467), PAS fold (InterPro:IPR013767), PAS (InterPro:IPR000014), Phytochrome chromophore attachment domain (InterPro:IPR016132), ATPase-like, ATP-binding domain (InterPro:IPR003594), PAS fold-2 (InterPro:IPR013654), Phytochrome A/B/C/D/E (InterPro:IPR012129), Phytochrome (InterPro:IPR001294), Signal transduction histidine kinase, subgroup 1, dimerisation/phosphoacceptor domain (InterPro:IPR003661), Phytochrome chromophore binding site (InterPro:IPR013516), GAF (InterPro:IPR003018); BEST Arabidopsis thaliana protein match is: phytochrome B (TAIR:AT2G18790.1); Has 25391 Blast hits to 25044 proteins in 3724 species: Archae - 289; Bacteria - 19481; Metazoa - 8; Fungi - 476; Plants - 4006; Viruses - 9; Other Eukaryotes - 1122 (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
      10042137..10046346 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_117923.8 → NP_193547.4  phytochrome E [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_193547.4

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P42498, Q56Y99
      UniProtKB/TrEMBL
      A0A178V0R9
      Conserved Domains (9) summary
      smart00065
      Location:217 → 397
      GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
      smart00091
      Location:601 → 658
      PAS; PAS domain
      smart00388
      Location:875 → 934
      HisKA; His Kinase A (phosphoacceptor) domain
      COG0642
      Location:875 → 1078
      BaeS; Signal transduction histidine kinase [Signal transduction mechanisms]
      cd00075
      Location:987 → 1092
      HATPase_c; Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins
      cd00130
      Location:743 → 852
      PAS; PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in ...
      pfam00360
      Location:404 → 573
      PHY; Phytochrome region
      pfam00989
      Location:598 → 716
      PAS; PAS fold
      pfam08446
      Location:65 → 184
      PAS_2; PAS fold
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P42498.2

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