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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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