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 Carubv10026982m
Common NameCARUB_v10026982mg
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: 257aa    MW: 29478.5 Da    PI: 10.3614
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10026982mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.53.5e-2863113151
                      S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                      k+ien + rqvtfskRr g++KKA+ELS+LCda+va iifs++g+lye++s
  Carubv10026982m  63 KKIENVTSRQVTFSKRRSGLFKKAHELSILCDAQVAAIIFSQKGRLYEFAS 113
                      68***********************************************86 PP
2K-box55.52.4e-191392221194
            K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      e+  + l++e+  + k+ie L+  +R+l+G++L  +s+keLq + +q+eksl  +R +K +l+ +++++l+ ke el++e  +L
  Carubv10026982m 139 EQYVQGLKKEMVAMVKKIEVLEVHNRKLMGQSLAFCSVKELQDIANQIEKSLHIVRLTKAKLYEDELKKLKAKEGELKDERVRL 222
                      56678999**************999*****************************************************998877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.2E-3955114IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.45555115IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.72E-3157130IPR002100Transcription factor, MADS-box
CDDcd002653.45E-3857127No hitNo description
PRINTSPR004043.7E-295777IPR002100Transcription factor, MADS-box
PfamPF003199.9E-2664111IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-297792IPR002100Transcription factor, MADS-box
PRINTSPR004043.7E-2992113IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.157142232IPR002487Transcription factor, K-box
PfamPF014866.9E-19143225IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009909Biological Processregulation of flower development
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: 257 aa     Download sequence    Send to blast
LNKRLDFFRV CCGSSAKSLK REQISTKLAS SLKRGFESFL LFLRFLTFSW KVIEMVRGKI  60
EIKKIENVTS RQVTFSKRRS GLFKKAHELS ILCDAQVAAI IFSQKGRLYE FASSDIKKTI  120
KRYSEYKREY FGAESHPIEQ YVQGLKKEMV AMVKKIEVLE VHNRKLMGQS LAFCSVKELQ  180
DIANQIEKSL HIVRLTKAKL YEDELKKLKA KEGELKDERV RLCGRVGEMS MGMPSGSKEK  240
EDVETDLSIG FSKSRP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-1955147190MEF2C
5f28_B1e-1955147190MEF2C
5f28_C1e-1955147190MEF2C
5f28_D1e-1955147190MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL42 and AGL71 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. {ECO:0000269|PubMed:21609362}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10026982m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ4470610.0DQ447061.1 Arabidopsis thaliana clone pENTR221-At5g51860 MADS-box protein (At5g51860) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023644519.11e-144MADS-box protein AGL72
SwissprotQ9FLH51e-121AGL72_ARATH; MADS-box protein AGL72
TrEMBLR0GNE90.0R0GNE9_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006280982.10.0(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
AT5G51860.21e-109MIKC_MADS family protein
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]