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    CCA1 circadian clock associated 1 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 819296, updated on 18-Sep-2024

    Summary

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    Official Symbol
    CCA1
    Official Full Name
    circadian clock associated 1
    Primary source
    TAIR:AT2G46830
    Locus tag
    AT2G46830
    See related
    Araport:AT2G46830
    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
    AtCCA1; circadian clock associated 1; F19D11.11; MYB-RELATED DNA BINDING PROTEIN
    Summary
    Encodes a transcriptional repressor that performs overlapping functions with LHY in a regulatory feedback loop that is closely associated with the circadian oscillator of Arabidopsis. Binds to the evening element in the promoter of TOC1 and represses TOC1 transcription. CCA1 and LHY colocalize in the nucleus and form heterodimers in vivo. CCA1 and LHY function synergistically in regulating circadian rhythms of Arabidopsis.
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    Genomic context

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    See CCA1 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    8
    Sequence:
    Chromosome: 2; NC_003071.7 (19245591..19248915)

    Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene basic helix-loop-helix (bHLH) DNA-binding superfamily protein Neighboring gene photosystem I P subunit Neighboring gene hypothetical protein (DOMAIN OF UNKNOWN FUNCTION 724 4) Neighboring gene Protein kinase superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003071.7

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Circadian regulation of the GLYCINE-RICH RNA-BINDING PROTEIN gene by the master clock protein CIRCADIAN CLOCK-ASSOCIATED 1 is important for plant innate immunity. Gao M, et al. J Exp Bot, 2023 Feb 5. PMID 36367575
    2. A Myb-related transcription factor is involved in the phytochrome regulation of an Arabidopsis Lhcb gene. Wang ZY, et al. Plant Cell, 1997 Apr. PMID 9144958, Free PMC Article
    3. Constitutive expression of the CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) gene disrupts circadian rhythms and suppresses its own expression. Wang ZY, et al. Cell, 1998 Jun 26. PMID 9657153
    4. Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock. Alabadí D, et al. Science, 2001 Aug 3. PMID 11486091
    5. CIRCADIAN CLOCK ASSOCIATED1 transcript stability and the entrainment of the circadian clock in Arabidopsis. Yakir E, et al. Plant Physiol, 2007 Nov. PMID 17873091, Free PMC Article

    See all (73) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Twilight length alters growth and flowering time in Arabidopsis via LHY/CCA1.
      Title: Twilight length alters growth and flowering time in Arabidopsis via LHY/CCA1.
    2. Circadian regulation of the GLYCINE-RICH RNA-BINDING PROTEIN gene by the master clock protein CIRCADIAN CLOCK-ASSOCIATED 1 is important for plant innate immunity.
      Title: Circadian regulation of the GLYCINE-RICH RNA-BINDING PROTEIN gene by the master clock protein CIRCADIAN CLOCK-ASSOCIATED 1 is important for plant innate immunity.
    3. BBX19 fine-tunes the circadian rhythm by interacting with PSEUDO-RESPONSE REGULATOR proteins to facilitate their repressive effect on morning-phased clock genes.
      Title: BBX19 fine-tunes the circadian rhythm by interacting with PSEUDO-RESPONSE REGULATOR proteins to facilitate their repressive effect on morning-phased clock genes.
    4. Recognition of CCA1 alternative protein isoforms during temperature acclimation.
      Title: Recognition of CCA1 alternative protein isoforms during temperature acclimation.
    5. CIRCADIAN CLOCK ASSOCIATED 1 and ATAF2 differentially suppress cytochrome P450-mediated brassinosteroid inactivation.
      Title: CIRCADIAN CLOCK ASSOCIATED 1 and ATAF2 differentially suppress cytochrome P450-mediated brassinosteroid inactivation.
    6. Transcription Factors FHY3 and FAR1 Regulate Light-Induced CIRCADIAN CLOCK ASSOCIATED1 Gene Expression in Arabidopsis.
      Title: Transcription Factors FHY3 and FAR1 Regulate Light-Induced CIRCADIAN CLOCK ASSOCIATED1 Gene Expression in Arabidopsis.
    7. CIRCADIAN CLOCK ASSOCIATED 1 gates morning phased auxin response in Arabidopsis thaliana.
      Title: CIRCADIAN CLOCK ASSOCIATED 1 gates morning phased auxin response in Arabidopsis thaliana.
    8. FER, which is up-regulated by CCA1, controls the flowering time by regulating the transcript accumulation and mRNA alternative splicing (AS) of some important flowering genes, and these findings link FER to the floral transition.
      Title: Receptor kinase FERONIA regulates flowering time in Arabidopsis.
    9. CCA1 regulates both clock-dependent and -independent defense responses. Systematic investigation based on bioinformatics analyses indicated that resistance to aphids in CCA1 overexpression line (CCA1-OX) was due primarily to heightened basal indole glucosinolate levels.
      Title: CIRCADIAN CLOCK-ASSOCIATED1 Controls Resistance to Aphids by Altering Indole Glucosinolate Production.
    10. CCA1 positively regulates time-of-day-dependent penetration resistance in Arabidopsis thaliana.
      Title: CCA1 and LHY contribute to nonhost resistance to Pyricularia oryzae (syn. Magnaporthe oryzae) in Arabidopsis thaliana.
    Submit: New GeneRIF Correction See all GeneRIFs (50)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_001337221.1
    NM_180129.4
    NM_180130.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables DNA-binding transcription factor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein domain specific binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		 PubMed 
    enables sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within circadian rhythm IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    acts_upstream_of_or_within circadian rhythm IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within circadian rhythm TAS
    Traceable Author Statement
    more info
    		 PubMed 
    acts_upstream_of_or_within long-day photoperiodism, flowering IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within negative regulation of circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within regulation of protein-containing complex assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to cold IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in response to heat IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    involved_in temperature compensation of the circadian clock 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
    circadian clock associated 1
    NP_001318437.1
    • circadian clock associated 1 (CCA1); BEST Arabidopsis thaliana protein match is: Homeodomain-like superfamily protein (TAIR:AT1G01060.3); Has 2694 Blast hits to 869 proteins in 218 species: Archae - 5; Bacteria - 81; Metazoa - 344; Fungi - 210; Plants - 198; Viruses - 7; Other Eukaryotes - 1849 (source: NCBI BLink).
    NP_850460.1
    • circadian clock associated 1 (CCA1); CONTAINS InterPro DOMAIN/s: SANT, DNA-binding (InterPro:IPR001005), Myb, DNA-binding (InterPro:IPR014778), Homeodomain-like (InterPro:IPR009057), Myb-like DNA-binding domain, SHAQKYF class (InterPro:IPR006447), HTH transcriptional regulator, Myb-type, DNA-binding (InterPro:IPR017930); BEST Arabidopsis thaliana protein match is: Homeodomain-like superfamily protein (TAIR:AT1G01060.3); Has 3942 Blast hits to 2101 proteins in 266 species: Archae - 5; Bacteria - 79; Metazoa - 414; Fungi - 218; Plants - 1144; Viruses - 7; Other Eukaryotes - 2075 (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_003071.7 Reference assembly

      Range
      19245591..19248915
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_180129.4 → NP_850460.1  circadian clock associated 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850460.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      P92973, Q8S8N5
      UniProtKB/TrEMBL
      A0A178VLU6, A0A5S9X7W9
      Conserved Domains (1) summary
      cl21498
      Location:22 → 72
      SANT; 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is ...

    2. NM_001337221.1 → NP_001318437.1  circadian clock associated 1 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VMC5

    3. NM_180130.2 → NP_850461.1  circadian clock associated 1 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_850461.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178VMC5
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P92973.1

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