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    PHYC phytochrome C [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 833570, updated on 18-Sep-2024

    Summary

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    Official Symbol
    PHYC
    Official Full Name
    phytochrome C
    Primary source
    TAIR:AT5G35840
    Locus tag
    AT5G35840
    See related
    Araport:AT5G35840
    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
    MIK22.15; MIK22_15; phytochrome C; PHYTOCHROME C
    Summary
    Encodes the apoprotein of phytochrome;one of a family of photoreceptors that modulate plant growth and development.
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    Genomic context

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    See PHYC in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    3
    Sequence:
    Chromosome: 5; NC_003076.8 (14007812..14011848)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene pseudo Neighboring gene Ankyrin repeat family protein Neighboring gene pseudo 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. Altitudinal and climatic adaptation is mediated by flowering traits and FRI, FLC, and PHYC genes in Arabidopsis. Méndez-Vigo B, et al. Plant Physiol, 2011 Dec. PMID 21988878, Free PMC Article
    2. Succinate dehydrogenase in Arabidopsis thaliana is regulated by light via phytochrome A. Popov VN, et al. FEBS Lett, 2010 Jan 4. PMID 19932106
    3. Bottom-up Assembly of the Phytochrome Network. Sánchez-Lamas M, et al. PLoS Genet, 2016 Nov. PMID 27820825, Free PMC Article
    4. 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
    5. 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

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Surprisingly, none of the phytochromes alone conferred a photoperiodic response. Although phyE and phyB were the strongest repressors of flowering, both phyB and phyC were needed to confer a flowering response to photoperiod. Thus, a specific combination of phytochromes is required to detect changes in photoperiod
      Title: Bottom-up Assembly of the Phytochrome Network.
    2. The spatial patterns of FRI, FLC, and PHYC polymorphisms are significantly associated with winter temperatures and spring and winter precipitations, respectively. The allelic variation in these genes is involved in climatic adaptation.
      Title: Altitudinal and climatic adaptation is mediated by flowering traits and FRI, FLC, and PHYC genes in Arabidopsis.
    3. phytochrome A is involved in the inhibition of sdh1-2 and sdh2-3 expression and this can be considered as an important mechanism for regulation of the mitochondrial respiration in the light.
      Title: Succinate dehydrogenase in Arabidopsis thaliana is regulated by light via phytochrome A.
    4. Results suggest that many type I and type II phytochromes, such as E and C, appear to function through PIF3-mediated pathways.
      Title: Obligate heterodimerization of Arabidopsis phytochromes C and E and interaction with the PIF3 basic helix-loop-helix transcription factor.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_122975.3

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    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 chloroplast ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    phytochrome C
    NP_198433.1
    • phytochrome C (PHYC); FUNCTIONS IN: protein histidine kinase activity; INVOLVED IN: in 8 processes; LOCATED IN: membrane; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: PAC motif (InterPro:IPR001610), 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 A (TAIR:AT1G09570.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (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
      14007812..14011848
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_122975.3 → NP_198433.1  phytochrome C [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_198433.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P14714
      UniProtKB/TrEMBL
      A0A5S9Y8G7, G4WU78, G4WU80, Q6TLJ1
      Conserved Domains (6) summary
      smart00065
      Location:217 → 403
      GAF; Domain present in phytochromes and cGMP-specific phosphodiesterases
      cd00130
      Location:615 → 721
      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:411 → 580
      PHY; Phytochrome region
      pfam00989
      Location:606 → 721
      PAS; PAS fold
      pfam02518
      Location:994 → 1110
      HATPase_c; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase
      pfam08446
      Location:65 → 180
      PAS_2; PAS fold
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P14714.1

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