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 RrC2400_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 258aa    MW: 28831.1 Da    PI: 5.012
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2400_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF87.19.9e-28959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                k+ien   rqvtfskRrng++KKA+ELS+LCdaevavi+fsstgk y++ss
  RrC2400_p1  9 KKIENVNSRQVTFSKRRNGLMKKANELSILCDAEVAVIVFSSTGKAYDFSS 59
                68***********************************************96 PP
2K-box55.23e-191041822199
       K-box  21 lakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                  + L++e+e Lq  + +l+G++Le +s+ +L +Le+ L++sl +++++K+++ll+q+e+++ +ek++ een+ Lrk++e
  RrC2400_p1 104 DESLRSELERLQLAIERLKGKELEGMSFSDLVSLENTLNDSLHSVKDRKTQILLNQVERSRLQEKRALEENQLLRKQIE 182
                 5789************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.763161IPR002100Transcription factor, MADS-box
SMARTSM004327.1E-40160IPR002100Transcription factor, MADS-box
CDDcd002652.77E-39269No hitNo description
SuperFamilySSF554553.01E-31270IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-28323IPR002100Transcription factor, MADS-box
PfamPF003191.2E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-283859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.9397187IPR002487Transcription factor, K-box
PfamPF014863.8E-15100181IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009555Biological Processpollen development
GO:0009910Biological Processnegative regulation of flower development
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
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: 258 aa     Download sequence    Send to blast
MGRGRIEIKK IENVNSRQVT FSKRRNGLMK KANELSILCD AEVAVIVFSS TGKAYDFSSG  60
SMEHILSRYG YSAVTAGHRQ REEGQQLLLC SSSSQENGDV LRTDESLRSE LERLQLAIER  120
LKGKELEGMS FSDLVSLENT LNDSLHSVKD RKTQILLNQV ERSRLQEKRA LEENQLLRKQ  180
IELFGSGPKP LSEITPFSSP QEEPESSSSD DDDENDNEEL QSNTSLQLGL ASSAYFAKRK  240
KPKIEPLCDN SGSQVASD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-20169169MEF2C
5f28_B6e-20169169MEF2C
5f28_C6e-20169169MEF2C
5f28_D6e-20169169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Prevents premature flowering. Downstream regulator of a subset of the MIKC* MADS-controlled genes required during pollen maturation. {ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:18034896, ECO:0000269|PubMed:18799658}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892312e-56AC189231.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013M01, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018458780.11e-165PREDICTED: agamous-like MADS-box protein AGL18
SwissprotQ9M2K81e-120AGL18_ARATH; Agamous-like MADS-box protein AGL18
TrEMBLA0A397ZJ941e-162A0A397ZJ94_BRACM; Uncharacterized protein
STRINGBo4g111230.11e-151(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM60612139
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57390.11e-107AGAMOUS-like 18