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 Carubv10017951m
Common NameCARUB_v10017951mg
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: 240aa    MW: 27361 Da    PI: 7.0904
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10017951mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.67.1e-28959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     kri+n++ rqvtfskRrng+lKKA+EL +LCdaev viifsstg+ly++ss
  Carubv10017951m  9 KRINNSTSRQVTFSKRRNGLLKKAKELAILCDAEVGVIIFSSTGRLYDFSS 59
                     79***********************************************96 PP
2K-box83.93.5e-2876170498
            K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                      +s+++  +++ + +q+e+a Lk++++nLq+++R+++Ge+L+ Ls+ +Lq+Le+qLe sl+ +R kK+++l+e+i+el +  + +++en +L+kk
  Carubv10017951m  76 TSSENDPASEIQFWQKEAAILKRQLHNLQENHRQMMGEELSGLSVDDLQKLENQLELSLRGVRMKKDQMLIEEIQELNREGNLVHQENLDLHKK 169
                      45555678899**********************************************************************************9 PP

            K-box  98 l 98 
                      +
  Carubv10017951m 170 V 170
                      8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.2E-39160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.791161IPR002100Transcription factor, MADS-box
CDDcd002656.17E-44278No hitNo description
SuperFamilySSF554552.35E-32290IPR002100Transcription factor, MADS-box
PRINTSPR004044.1E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.9E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.1E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004044.1E-283859IPR002100Transcription factor, MADS-box
PfamPF014867.1E-2683170IPR002487Transcription factor, K-box
PROSITE profilePS5129716.03986176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010440Biological Processstomatal lineage progression
GO:0048574Biological Processlong-day photoperiodism, flowering
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008134Molecular Functiontranscription factor binding
GO:0042803Molecular Functionprotein homodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 240 aa     Download sequence    Send to blast
MGRGKIAIKR INNSTSRQVT FSKRRNGLLK KAKELAILCD AEVGVIIFSS TGRLYDFSSS  60
SMKSVIERYT DAKGETSSEN DPASEIQFWQ KEAAILKRQL HNLQENHRQM MGEELSGLSV  120
DDLQKLENQL ELSLRGVRMK KDQMLIEEIQ ELNREGNLVH QENLDLHKKV NLMHQQNLEL  180
HEKVSEVEGV KITNKNSLLT NGLDMRDNSS EHVHLQLSQP QHDETHAKAI QLNYFSFIA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-20171171MEF2C
5f28_B2e-20171171MEF2C
5f28_C2e-20171171MEF2C
5f28_D2e-20171171MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the regulation of flowering time in long-day photoperiod. Participates in the repression of FT expression and floral transition, by interacting closely with the FLC-SVP pathways (PubMed:24876250). Functions in the satellite meristemoid lineage of stomatal development (PubMed:17704216). {ECO:0000269|PubMed:17704216, ECO:0000269|PubMed:24876250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00410DAPTransfer from AT3G57230Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10017951m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by the micro RNA miR824. {ECO:0000269|PubMed:18579782}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0300460.0BT030046.1 Arabidopsis thaliana At3g57230 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006291780.11e-175agamous-like MADS-box protein AGL16
SwissprotA2RVQ51e-167AGL16_ARATH; Agamous-like MADS-box protein AGL16
TrEMBLR0HL771e-174R0HL77_9BRAS; Uncharacterized protein
STRINGCagra.0578s0054.1.p1e-175(Capsella grandiflora)
STRINGXP_006291780.11e-175(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57230.11e-169AGAMOUS-like 16
Publications ? help Back to Top
  1. Yang K,Jiang M,Le J
    A new loss-of-function allele 28y reveals a role of ARGONAUTE1 in limiting asymmetric division of stomatal lineage ground cell.
    J Integr Plant Biol, 2014. 56(6): p. 539-49
    [PMID:24386951]