PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10018408m
Common NameCARUB_v10018408mg
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: 246aa    MW: 27662.8 Da    PI: 10.3763
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10018408mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF916e-291058250
                     ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
           SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                     rienk++rqvtfskRr+g+ KKA+E+SvLCda+va+i+fs++gkl+eys
  Carubv10018408m 10 RIENKIRRQVTFSKRRAGLVKKAQEISVLCDADVALIVFSPKGKLFEYS 58
                     8***********************************************8 PP
2K-box81.71.6e-27881721498
            K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                      + ++++e ++L + i+ +qr+ Rhl+Ge+++ Ls++eLq Le qL+++lkk Rs+Kn+l++e+i +lqkkekel+e +k+L+kk 
  Carubv10018408m  88 QGECSTECSRLLRMIDVMQRSVRHLKGEEVDALSIRELQGLEMQLDTALKKTRSRKNQLMIESIAQLQKKEKELKELKKQLTKKA 172
                      467899****************************************************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.572161IPR002100Transcription factor, MADS-box
SMARTSM004323.4E-37160IPR002100Transcription factor, MADS-box
CDDcd002651.51E-39278No hitNo description
SuperFamilySSF554554.19E-31284IPR002100Transcription factor, MADS-box
PRINTSPR004044.6E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.1E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004044.6E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004044.6E-283859IPR002100Transcription factor, MADS-box
PfamPF014864.5E-2387171IPR002487Transcription factor, K-box
PROSITE profilePS5129714.24588178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 246 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRAGLVK KAQEISVLCD ADVALIVFSP KGKLFEYSAG  60
SSMERILDRY ERSSYAGQET PTPNLDSQGE CSTECSRLLR MIDVMQRSVR HLKGEEVDAL  120
SIRELQGLEM QLDTALKKTR SRKNQLMIES IAQLQKKEKE LKELKKQLTK KAGQREDFEP  180
QNLRHDLATP PCASPQALPR PISPPPPISF GETSQRNGVE GVAAGTLIRN TNTTLPHWMP  240
RLTGE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-19170169MEF2C
5f28_B2e-19170169MEF2C
5f28_C2e-19170169MEF2C
5f28_D2e-19170169MEF2C
6byy_A3e-19174173MEF2 CHIMERA
6byy_B3e-19174173MEF2 CHIMERA
6byy_C3e-19174173MEF2 CHIMERA
6byy_D3e-19174173MEF2 CHIMERA
6bz1_A3e-19174173MEF2 CHIMERA
6bz1_B3e-19174173MEF2 CHIMERA
6bz1_C3e-19174173MEF2 CHIMERA
6bz1_D3e-19174173MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10018408m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412380.0AY141238.1 Arabidopsis thaliana MADS-box protein AGL79 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006292203.10.0truncated transcription factor CAULIFLOWER A
SwissprotQ6E6S78e-76AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLR0FS021e-180R0FS02_9BRAS; Uncharacterized protein
STRINGXP_006292203.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM130331525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G30260.11e-131AGAMOUS-like 79
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]