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Protein

Protein CCA1

Gene

CCA1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Transcription factor involved in the circadian clock and in the phytochrome regulation. Binds to the promoter regions of APRR1/TOC1 and TCP21/CHE to repress their transcription. Binds to the promoter regions of CAB2A and CAB2B to promote their transcription. Represses both LHY and itself.7 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi46 – 6924H-T-H motifPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  • DNA binding Source: TAIR
  • sequence-specific DNA binding Source: TAIR
  • transcription factor activity, sequence-specific DNA binding Source: TAIR

GO - Biological processi

  • circadian rhythm Source: TAIR
  • long-day photoperiodism, flowering Source: TAIR
  • negative regulation of circadian rhythm Source: TAIR
  • negative regulation of transcription, DNA-templated Source: TAIR
  • positive regulation of transcription, DNA-templated Source: TAIR
  • regulation of protein homodimerization activity Source: TAIR
  • response to abscisic acid Source: TAIR
  • response to auxin Source: TAIR
  • response to cadmium ion Source: TAIR
  • response to cold Source: TAIR
  • response to ethylene Source: TAIR
  • response to gibberellin Source: TAIR
  • response to jasmonic acid Source: TAIR
  • response to organonitrogen compound Source: TAIR
  • response to salicylic acid Source: TAIR
  • response to salt stress Source: TAIR
  • transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Biological rhythms, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Protein CCA11 Publication
Alternative name(s):
MYB-related transcription factor CCA11 Publication
Protein CIRCADIAN CLOCK ASSOCIATED 11 Publication
Gene namesi
Name:CCA11 Publication
Ordered Locus Names:At2g46830Imported
ORF Names:F19D11Imported
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 2

Organism-specific databases

TAIRiAT2G46830.

Subcellular locationi

GO - Cellular componenti

  • nucleus Source: TAIR
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Altered phytochrome regulation and shorter circadian oscillations.2 Publications

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi5 – 51S → A: No effect on CKB3 binding, but loss of DNA binding; when associated with A-6; A-431; A-432; A-433 and A-484. 1 Publication
Mutagenesisi6 – 61S → A: No effect on CKB3 binding, but loss of DNA binding; when associated with A-5; A-431; A-432; A-433 and A-484. 1 Publication
Mutagenesisi431 – 4311S → A: No effect on CKB3 binding; but loss of DNA binding; when associated with A-5; A-6; A-432; A-433 and A-484. 1 Publication
Mutagenesisi432 – 4321S → A: No effect on CKB3 binding, but loss of DNA binding; when associated with A-5; A-6; A-431; A-433 and A-484. 1 Publication
Mutagenesisi433 – 4331S → A: No effect on CKB3 binding, but loss of DNA binding; when associated with A-5; A-6; A-431; A-432 and A-484. 1 Publication
Mutagenesisi484 – 4841S → A: No effect on CKB3 binding, but loss of DNA binding; when associated with A-5; A-6; A-431; A-432 and A-433. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 608608Protein CCA1PRO_0000388997Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei5 – 51Phosphoserine; by CK21 Publication
Modified residuei6 – 61Phosphoserine; by CK21 Publication

Post-translational modificationi

Phosphorylated at Ser-5, Ser-6, and at least at one of the position Ser-431, Ser-432, Ser-433 or Ser-484. Phosphorylation is involved in dimerization and is necessary for binding to promoters and regulation of the circadian clock.2 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

PaxDbiP92973.
PRIDEiP92973.

PTM databases

iPTMnetiP92973.

Expressioni

Tissue specificityi

Expressed in leaves, roots, stems, flowers and siliques.2 Publications

Inductioni

Circadian-regulation with peak levels occurring around 1 hour after dawn. Up-regulated by APRR1/TOC1 and transiently by light treatment. Down-regulated by APRR5, APRR7 and APRR9. The CCA1 mRNA is relatively stable in the dark and in far-red light but has a short half-life in red and blue light.7 Publications

Gene expression databases

GenevisibleiP92973. AT.

Interactioni

Subunit structurei

Homodimer or heterodimer with LHY. Interacts with LHY; independently of photoperiod. Probably part of a large complex. Interacts with CKB1, CKB2 and CKB3. Interacts with LNK1 and LNK2 (PubMed:25012192).5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
CKA1Q084674EBI-1644880,EBI-1644972
CKB1P402283EBI-1644880,EBI-1644917
CKB3O812756EBI-1644880,EBI-1644873

Protein-protein interaction databases

BioGridi4631. 18 interactions.
IntActiP92973. 4 interactions.
STRINGi3702.AT2G46830.1.

Structurei

3D structure databases

ProteinModelPortaliP92973.
SMRiP92973. Positions 22-70.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini19 – 7355HTH myb-typePROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi308 – 32417Ala-richAdd
BLAST
Compositional biasi517 – 5226Poly-Gln

Domaini

The N-terminal part (11-82) is essential for DNA binding, an internal domain (136-316) is important for homodimerization and for interaction with LHY and the C-terminal part (317-608) is necessary for interaction with CKB3.

Sequence similaritiesi

Contains 1 HTH myb-type DNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

eggNOGiKOG0724. Eukaryota.
COG5269. LUCA.
HOGENOMiHOG000084594.
InParanoidiP92973.
KOiK12134.
OMAiCHEQPSA.
PhylomeDBiP92973.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR017930. Myb_dom.
IPR006447. Myb_dom_plants.
IPR001005. SANT/Myb.
[Graphical view]
PfamiPF00249. Myb_DNA-binding. 1 hit.
[Graphical view]
SMARTiSM00717. SANT. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
TIGRFAMsiTIGR01557. myb_SHAQKYF. 1 hit.
PROSITEiPS51294. HTH_MYB. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: P92973-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
METNSSGEDL VIKTRKPYTI TKQRERWTEE EHNRFIEALR LYGRAWQKIE
60 70 80 90 100
EHVATKTAVQ IRSHAQKFFS KVEKEAEAKG VAMGQALDIA IPPPRPKRKP
110 120 130 140 150
NNPYPRKTGS GTILMSKTGV NDGKESLGSE KVSHPEMANE DRQQSKPEEK
160 170 180 190 200
TLQEDNCSDC FTHQYLSAAS SMNKSCIETS NASTFREFLP SREEGSQNNR
210 220 230 240 250
VRKESNSDLN AKSLENGNEQ GPQTYPMHIP VLVPLGSSIT SSLSHPPSEP
260 270 280 290 300
DSHPHTVAGD YQSFPNHIMS TLLQTPALYT AATFASSFWP PDSSGGSPVP
310 320 330 340 350
GNSPPNLAAM AAATVAAASA WWAANGLLPL CAPLSSGGFT SHPPSTFGPS
360 370 380 390 400
CDVEYTKAST LQHGSVQSRE QEHSEASKAR SSLDSEDVEN KSKPVCHEQP
410 420 430 440 450
SATPESDAKG SDGAGDRKQV DRSSCGSNTP SSSDDVEADA SERQEDGTNG
460 470 480 490 500
EVKETNEDTN KPQTSESNAR RSRISSNITD PWKSVSDEGR IAFQALFSRE
510 520 530 540 550
VLPQSFTYRE EHREEEQQQQ EQRYPMALDL NFTAQLTPVD DQEEKRNTGF
560 570 580 590 600
LGIGLDASKL MSRGRTGFKP YKRCSMEAKE SRILNNNPII HVEQKDPKRM

RLETQAST
Length:608
Mass (Da):66,976
Last modified:May 1, 1997 - v1
Checksum:i083C963EE6DD53A6
GO
Isoform 2 (identifier: P92973-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-82: Missing.

Show »
Length:526
Mass (Da):57,347
Checksum:i9E9739AE1200ED0F
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 8282Missing in isoform 2. 1 PublicationVSP_038391Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28422 mRNA. Translation: AAB40525.1.
U79156 Genomic DNA. Translation: AAC98813.1.
AY519511 mRNA. Translation: AAS09981.1.
AC005310 Genomic DNA. Translation: AAC33507.1.
AC005310 Genomic DNA. Translation: AAM15022.1.
CP002685 Genomic DNA. Translation: AEC10760.1.
CP002685 Genomic DNA. Translation: AEC10761.1.
BT001096 mRNA. Translation: AAN61004.1.
BT001105 mRNA. Translation: AAN64169.1.
PIRiT02684.
RefSeqiNP_850460.1. NM_180129.3. [P92973-1]
NP_850461.1. NM_180130.2. [P92973-2]
UniGeneiAt.10956.

Genome annotation databases

EnsemblPlantsiAT2G46830.1; AT2G46830.1; AT2G46830. [P92973-1]
GeneIDi819296.
KEGGiath:AT2G46830.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U28422 mRNA. Translation: AAB40525.1.
U79156 Genomic DNA. Translation: AAC98813.1.
AY519511 mRNA. Translation: AAS09981.1.
AC005310 Genomic DNA. Translation: AAC33507.1.
AC005310 Genomic DNA. Translation: AAM15022.1.
CP002685 Genomic DNA. Translation: AEC10760.1.
CP002685 Genomic DNA. Translation: AEC10761.1.
BT001096 mRNA. Translation: AAN61004.1.
BT001105 mRNA. Translation: AAN64169.1.
PIRiT02684.
RefSeqiNP_850460.1. NM_180129.3. [P92973-1]
NP_850461.1. NM_180130.2. [P92973-2]
UniGeneiAt.10956.

3D structure databases

ProteinModelPortaliP92973.
SMRiP92973. Positions 22-70.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4631. 18 interactions.
IntActiP92973. 4 interactions.
STRINGi3702.AT2G46830.1.

PTM databases

iPTMnetiP92973.

Proteomic databases

PaxDbiP92973.
PRIDEiP92973.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT2G46830.1; AT2G46830.1; AT2G46830. [P92973-1]
GeneIDi819296.
KEGGiath:AT2G46830.

Organism-specific databases

TAIRiAT2G46830.

Phylogenomic databases

eggNOGiKOG0724. Eukaryota.
COG5269. LUCA.
HOGENOMiHOG000084594.
InParanoidiP92973.
KOiK12134.
OMAiCHEQPSA.
PhylomeDBiP92973.

Miscellaneous databases

PROiP92973.

Gene expression databases

GenevisibleiP92973. AT.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR009057. Homeodomain-like.
IPR017930. Myb_dom.
IPR006447. Myb_dom_plants.
IPR001005. SANT/Myb.
[Graphical view]
PfamiPF00249. Myb_DNA-binding. 1 hit.
[Graphical view]
SMARTiSM00717. SANT. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
TIGRFAMsiTIGR01557. myb_SHAQKYF. 1 hit.
PROSITEiPS51294. HTH_MYB. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "A Myb-related transcription factor is involved in the phytochrome regulation of an Arabidopsis Lhcb gene."
    Wang Z.-Y., Kenigsbuch D., Sun L., Harel E., Ong M.S., Tobin E.M.
    Plant Cell 9:491-507(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA / MRNA] (ISOFORM 1), SUBCELLULAR LOCATION, INDUCTION BY LIGHT, DNA-BINDING.
    Strain: cv. Columbia.
  2. "The MYB transcription factor superfamily of Arabidopsis: expression analysis and phylogenetic comparison with the rice MYB family."
    Chen Y., Yang X., He K., Liu M., Li J., Gao Z., Lin Z., Zhang Y., Wang X., Qiu X., Shen Y., Zhang L., Deng X., Luo J., Deng X.-W., Chen Z., Gu H., Qu L.-J.
    Plant Mol. Biol. 60:107-124(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), GENE FAMILY.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: cv. Columbia.
  4. The Arabidopsis Information Resource (TAIR)
    Submitted (APR-2011) to the EMBL/GenBank/DDBJ databases
    Cited for: GENOME REANNOTATION.
    Strain: cv. Columbia.
  5. "Empirical analysis of transcriptional activity in the Arabidopsis genome."
    Yamada K., Lim J., Dale J.M., Chen H., Shinn P., Palm C.J., Southwick A.M., Wu H.C., Kim C.J., Nguyen M., Pham P.K., Cheuk R.F., Karlin-Newmann G., Liu S.X., Lam B., Sakano H., Wu T., Yu G.
    , Miranda M., Quach H.L., Tripp M., Chang C.H., Lee J.M., Toriumi M.J., Chan M.M., Tang C.C., Onodera C.S., Deng J.M., Akiyama K., Ansari Y., Arakawa T., Banh J., Banno F., Bowser L., Brooks S.Y., Carninci P., Chao Q., Choy N., Enju A., Goldsmith A.D., Gurjal M., Hansen N.F., Hayashizaki Y., Johnson-Hopson C., Hsuan V.W., Iida K., Karnes M., Khan S., Koesema E., Ishida J., Jiang P.X., Jones T., Kawai J., Kamiya A., Meyers C., Nakajima M., Narusaka M., Seki M., Sakurai T., Satou M., Tamse R., Vaysberg M., Wallender E.K., Wong C., Yamamura Y., Yuan S., Shinozaki K., Davis R.W., Theologis A., Ecker J.R.
    Science 302:842-846(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: cv. Columbia.
  6. "Constitutive expression of the CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) gene disrupts circadian rhythms and suppresses its own expression."
    Wang Z.-Y., Tobin E.M.
    Cell 93:1207-1217(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION.
  7. "Protein kinase CK2 interacts with and phosphorylates the Arabidopsis circadian clock-associated 1 protein."
    Sugano S., Andronis C., Green R.M., Wang Z.-Y., Tobin E.M.
    Proc. Natl. Acad. Sci. U.S.A. 95:11020-11025(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH CKB1; CKB2 AND CKB3, PHOSPHORYLATION.
  8. "Loss of the circadian clock-associated protein 1 in Arabidopsis results in altered clock-regulated gene expression."
    Green R.M., Tobin E.M.
    Proc. Natl. Acad. Sci. U.S.A. 96:4176-4179(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: DISRUPTION PHENOTYPE.
  9. "Reciprocal regulation between TOC1 and LHY/CCA1 within the Arabidopsis circadian clock."
    Alabadi D., Oyama T., Yanovsky M.J., Harmon F.G., Mas P., Kay S.A.
    Science 293:880-883(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DNA-BINDING.
  10. "Critical role for CCA1 and LHY in maintaining circadian rhythmicity in Arabidopsis."
    Alabadi D., Yanovsky M.J., Mas P., Harmer S.L., Kay S.A.
    Curr. Biol. 12:757-761(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  11. "LHY and CCA1 are partially redundant genes required to maintain circadian rhythms in Arabidopsis."
    Mizoguchi T., Wheatley K., Hanzawa Y., Wright L., Mizoguchi M., Song H.-R., Carre I.A., Coupland G.
    Dev. Cell 2:629-641(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  12. "CK2 phosphorylation of CCA1 is necessary for its circadian oscillator function in Arabidopsis."
    Daniel X., Sugano S., Tobin E.M.
    Proc. Natl. Acad. Sci. U.S.A. 101:3292-3297(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH CKB3, MUTAGENESIS OF SER-5; SER-6; SER-431; SER-432; SER-433 AND SER-484, PHOSPHORYLATION AT SER-5 AND SER-6.
  13. "CIRCADIAN CLOCK ASSOCIATED1 transcript stability and the entrainment of the circadian clock in Arabidopsis."
    Yakir E., Hilman D., Hassidim M., Green R.M.
    Plant Physiol. 145:925-932(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION BY LIGHT.
  14. "The circadian clock in Arabidopsis roots is a simplified slave version of the clock in shoots."
    James A.B., Monreal J.A., Nimmo G.A., Kelly C.L., Herzyk P., Jenkins G.I., Nimmo H.G.
    Science 322:1832-1835(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, TISSUE SPECIFICITY, INDUCTION.
  15. "CIRCADIAN CLOCK ASSOCIATED1 and LATE ELONGATED HYPOCOTYL function synergistically in the circadian clock of Arabidopsis."
    Lu S.X., Knowles S.M., Andronis C., Ong M.S., Tobin E.M.
    Plant Physiol. 150:834-843(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INDUCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY, SUBUNIT, INTERACTION WITH LHY, DISRUPTION PHENOTYPE.
  16. "Posttranslational regulation of CIRCADIAN CLOCK ASSOCIATED1 in the circadian oscillator of Arabidopsis."
    Yakir E., Hilman D., Kron I., Hassidim M., Melamed-Book N., Green R.M.
    Plant Physiol. 150:844-857(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, SUBUNIT, INTERACTION WITH LHY.
  17. "A functional genomics approach reveals CHE as a component of the Arabidopsis circadian clock."
    Pruneda-Paz J.L., Breton G., Para A., Kay S.A.
    Science 323:1481-1485(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  18. "PSEUDO-RESPONSE REGULATORS 9, 7, and 5 are transcriptional repressors in the Arabidopsis circadian clock."
    Nakamichi N., Kiba T., Henriques R., Mizuno T., Chua N.H., Sakakibara H.
    Plant Cell 22:594-605(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: INDUCTION.
  19. "LNK1 and LNK2 are transcriptional coactivators in the Arabidopsis circadian oscillator."
    Xie Q., Wang P., Liu X., Yuan L., Wang L., Zhang C., Li Y., Xing H., Zhi L., Yue Z., Zhao C., McClung C.R., Xu X.
    Plant Cell 26:2843-2857(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH LNK1 AND LNK2.

Entry informationi

Entry nameiCCA1_ARATH
AccessioniPrimary (citable) accession number: P92973
Secondary accession number(s): Q8S8N5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 24, 2009
Last sequence update: May 1, 1997
Last modified: April 13, 2016
This is version 125 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Miscellaneous

CCA1 and LHY are only partially redundant, but they bind to the same region of the promoters.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.