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

Gene ID: 819296, updated on 4-May-2019

Summary

Gene symbol
CCA1
Gene description
circadian clock associated 1
Primary source
Araport:AT2G46830
Locus tag
AT2G46830
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Arabidopsis thaliana (ecotype: Columbia)
Lineage
Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; 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.

Genomic context

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

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Circadian rhythm - plant, organism-specific biosystem (from KEGG)
    Circadian rhythm - plant, organism-specific biosystemThe circadian system is an endogenous rhythm with the period of about 24 hours to provide temporal organization of biological activity. In Arabidopsis the circadian oscillator at the core of this sys...
  • Circadian rhythm - plant, conserved biosystem (from KEGG)
    Circadian rhythm - plant, conserved biosystemThe circadian system is an endogenous rhythm with the period of about 24 hours to provide temporal organization of biological activity. In Arabidopsis the circadian oscillator at the core of this sys...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

NM_001337221.1
NM_180129.4
NM_180130.2

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein domain specific binding ISS
Inferred from Sequence or Structural Similarity
more info
PubMed 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
circadian rhythm IEP
Inferred from Expression Pattern
more info
PubMed 
circadian rhythm IGI
Inferred from Genetic Interaction
more info
PubMed 
circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
circadian rhythm TAS
Traceable Author Statement
more info
PubMed 
long-day photoperiodism, flowering IGI
Inferred from Genetic Interaction
more info
PubMed 
negative regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of transcription, DNA-templated IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of protein homodimerization activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
response to abscisic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to auxin IEP
Inferred from Expression Pattern
more info
PubMed 
response to cadmium ion IEP
Inferred from Expression Pattern
more info
PubMed 
response to cold IGI
Inferred from Genetic Interaction
more info
PubMed 
response to ethylene IEP
Inferred from Expression Pattern
more info
PubMed 
response to gibberellin IEP
Inferred from Expression Pattern
more info
PubMed 
response to jasmonic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to organonitrogen compound IEP
Inferred from Expression Pattern
more info
PubMed 
response to salicylic acid IEP
Inferred from Expression Pattern
more info
PubMed 
response to salt stress IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISM
Inferred from Sequence Model
more info
 

General protein information

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)

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_180129.4NP_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
    UniProtKB/TrEMBL
    A0A178VLU6
    Conserved Domains (2) summary
    smart00717
    Location:2471
    SANT; SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains
    cl21498
    Location:2272
    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_001337221.1NP_001318437.1  circadian clock associated 1 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    P92973
    UniProtKB/TrEMBL
    A0A178VMC5
  3. NM_180130.2NP_850461.1  circadian clock associated 1 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_850461.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    P92973
    UniProtKB/TrEMBL
    A0A178VMC5
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