PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10027142m
Common NameCARUB_v10027142mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MIKC_MADS
Protein Properties Length: 207aa    MW: 24134.6 Da    PI: 9.5863
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10027142mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.54.9e-30959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     k+ien + rqvtfskRrng+lKKA+ELSvLCda+v++iifs++g+lye+ss
  Carubv10027142m  9 KKIENATSRQVTFSKRRNGLLKKAYELSVLCDAQVSLIIFSQRGRLYEFSS 59
                     68***********************************************96 PP
2K-box69.41.1e-2377167697
            K-box   6 gksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                       +s++++ + +lqqe++ L  +i+ L+  +R+llG+++ s+sl+eLq++ +qL++sl k+R++K +l+ eq+e+l+ kek+l +en +L++k
  Carubv10027142m  77 ETSNHDS-EIYLQQEASHLITKIDHLEFHKRRLLGQGIASCSLEELQEIDSQLQRSLGKVRERKAQLFSEQVEKLKAKEKQLLDENVKLHQK 167
                      3334444.559****************999************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.394161IPR002100Transcription factor, MADS-box
SMARTSM004328.7E-41160IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.76E-34383IPR002100Transcription factor, MADS-box
CDDcd002651.51E-43378No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003198.5E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004045.1E-313859IPR002100Transcription factor, MADS-box
PfamPF014869.4E-2478167IPR002487Transcription factor, K-box
PROSITE profilePS5129712.87284174IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009838Biological Processabscission
GO:0009909Biological Processregulation of flower development
GO:0010150Biological Processleaf senescence
GO:0080187Biological Processfloral organ senescence
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 207 aa     Download sequence    Send to blast
MVRGKIEMKK IENATSRQVT FSKRRNGLLK KAYELSVLCD AQVSLIIFSQ RGRLYEFSSS  60
DMKKTIERYR KYTKDHETSN HDSEIYLQQE ASHLITKIDH LEFHKRRLLG QGIASCSLEE  120
LQEIDSQLQR SLGKVRERKA QLFSEQVEKL KAKEKQLLDE NVKLHQKSVI ETWRGSNEQQ  180
EKCRVIDLNL DVQTDLFIGL PNRHCS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P5e-22182183Myocyte-specific enhancer factor 2B
1tqe_Q5e-22182183Myocyte-specific enhancer factor 2B
1tqe_R5e-22182183Myocyte-specific enhancer factor 2B
1tqe_S5e-22182183Myocyte-specific enhancer factor 2B
5f28_A6e-22182183MEF2C
5f28_B6e-22182183MEF2C
5f28_C6e-22182183MEF2C
5f28_D6e-22182183MEF2C
6byy_A7e-22182183MEF2 CHIMERA
6byy_B7e-22182183MEF2 CHIMERA
6byy_C7e-22182183MEF2 CHIMERA
6byy_D7e-22182183MEF2 CHIMERA
6c9l_A5e-22182183Myocyte-specific enhancer factor 2B
6c9l_B5e-22182183Myocyte-specific enhancer factor 2B
6c9l_C5e-22182183Myocyte-specific enhancer factor 2B
6c9l_D5e-22182183Myocyte-specific enhancer factor 2B
6c9l_E5e-22182183Myocyte-specific enhancer factor 2B
6c9l_F5e-22182183Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00576DAPTransfer from AT5G62165Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10027142m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0542200.0AY054220.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0652060.0AY065206.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY0660350.0AY066035.1 Arabidopsis thaliana At2g45660/F17K2.19 mRNA, complete cds.
GenBankAY0965090.0AY096509.1 Arabidopsis thaliana unknown protein (At5g62165) mRNA, complete cds.
GenBankAY1412130.0AY141213.1 Arabidopsis thaliana MADS-box protein AGL42 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023640210.11e-147MADS-box protein AGL42 isoform X1
SwissprotQ9FIS11e-130AGL42_ARATH; MADS-box protein AGL42
TrEMBLR0EYN71e-148R0EYN7_9BRAS; Uncharacterized protein
STRINGXP_006281113.11e-149(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.31e-133AGAMOUS-like 42