PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00015984001
Common NameGSBRNA2T00015984001, LOC106406772
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family TCP
Protein Properties Length: 237aa    MW: 24750.4 Da    PI: 7.8173
Description TCP family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00015984001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1TCP121.21.2e-37271902120
                  TCP   2 agkkdrhskihTkvggRdRRvRlsaecaarfFdLqdeLGfdkdsktieWLlqqakpaikeltgtssssaseceaesssssas...nsssg 88 
                          a+kk +  ++h+kv+gR+RR+R+++ caar+F+L++eLG+++d++tieWLl+qa+p+i+++tgt++++as++ ++s s s+        +
  GSBRNA2T00015984001  27 AVKKPPANDRHSKVDGRGRRIRMPVICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFS-TASLSTSSPftlG---K 112
                          789*************************************************************99999666.2233332222220...1 PP

                  TCP  89 ...........................................................kaaksaakskksqksaasalnlakesrakar 119
                                                                                     +           q++a+  l + +++++++ 
  GSBRNA2T00015984001 113 rvvraeegesgagggelsvghtmgasggggfwavparndftqvwsfaagappemlftqqQ-----------QQPAT--LFVRHQQQQQQE 189
                          344444445566778888888888888889999999999999998875333333333221...........22222..222222222222 PP

                  TCP 120 a 120
                          a
  GSBRNA2T00015984001 190 A 190
                          2 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5136926.7383387IPR017887Transcription factor TCP subgroup
PfamPF036342.3E-3234188IPR005333Transcription factor, TCP
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042752Biological Processregulation of circadian rhythm
GO:0043433Biological Processnegative regulation of sequence-specific DNA binding transcription factor activity
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 237 aa     Download sequence    Send to blast
MSNDDGTVTN GAIVEHTSAA NKGTLNAVKK PPANDRHSKV DGRGRRIRMP VICAARVFQL  60
TRELGHKSDG QTIEWLLRQA EPSIIAATGT GTTPASFSTA SLSTSSPFTL GKRVVRAEEG  120
ESGAGGGELS VGHTMGASGG GGFWAVPARN DFTQVWSFAA GAPPEMLFTQ QQQQPATLFV  180
RHQQQQQQEA SAAAAMGEAS AARVGNYLPG HHLNLLASLS GGNTGSGRRE EEDDSR*
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves, roots, and stems. {ECO:0000269|PubMed:19286557}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in the regulation of the circadian clock. Acts as a repressor of CCA1 by binding to its promoter. No binding to the LHY promoter. {ECO:0000269|PubMed:19286557}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00499DAPTransfer from AT5G08330Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00015984001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1893320.0AC189332.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB038E05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013702960.11e-173transcription factor TCP21
SwissprotQ9FTA21e-113TCP21_ARATH; Transcription factor TCP21
TrEMBLA0A078G8381e-172A0A078G838_BRANA; BnaC09g47560D protein
STRINGBra009338.1-P1e-169(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17822685
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G08330.15e-87TCP family protein
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Wu JF, et al.
    LWD-TCP complex activates the morning gene CCA1 in Arabidopsis.
    Nat Commun, 2016. 7: p. 13181
    [PMID:27734958]
  3. Ng DW,Chen HH,Chen ZJ
    Heterologous protein-DNA interactions lead to biased allelic expression of circadian clock genes in interspecific hybrids.
    Sci Rep, 2017. 7: p. 45087
    [PMID:28345627]
  4. Lee CM, et al.
    Decoys Untangle Complicated Redundancy and Reveal Targets of Circadian Clock F-Box Proteins.
    Plant Physiol., 2018. 177(3): p. 1170-1186
    [PMID:29794020]