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 RrC13077_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: 241aa    MW: 27383.3 Da    PI: 10.0296
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC13077_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.41.2e-30959151
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 krienk+nrqvtfskRr g+lKKA+E+SvLCdaeva+++fss+gkl+eys+
  RrC13077_p1  9 KRIENKINRQVTFSKRRSGLLKKAHEISVLCDAEVALVVFSSKGKLFEYST 59
                 79***********************************************96 PP
2K-box101.41.3e-33781744100
        K-box   4 ssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                  ++ +  + +++e++  e+akLk+++e L++++R+++GedL+sLslk+Lq+Le+qL+ ++k+iRs+Kn+ ++e+i+ lqkk k+lq++n+aL kk++e
  RrC13077_p1  78 KQLVGRDISQSENWVLEHAKLKARVEVLEKNKRNFMGEDLDSLSLKDLQSLEHQLHAAIKSIRSRKNQAMYESISALQKKDKALQDHNNALLKKIKE 174
                  56666778899***********************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.52161IPR002100Transcription factor, MADS-box
SMARTSM004323.3E-40160IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.66E-33291IPR002100Transcription factor, MADS-box
CDDcd002658.15E-40279No hitNo description
PRINTSPR004041.5E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.3E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-313859IPR002100Transcription factor, MADS-box
PfamPF014865.0E-2886172IPR002487Transcription factor, K-box
PROSITE profilePS5129715.59988178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010077Biological Processmaintenance of inflorescence meristem identity
GO:0010154Biological Processfruit 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: 241 aa     Download sequence    Send to blast
MGRGRVQLKR IENKINRQVT FSKRRSGLLK KAHEISVLCD AEVALVVFSS KGKLFEYSTD  60
SCMERILERY DRYLYSDKQL VGRDISQSEN WVLEHAKLKA RVEVLEKNKR NFMGEDLDSL  120
SLKDLQSLEH QLHAAIKSIR SRKNQAMYES ISALQKKDKA LQDHNNALLK KIKEREKKNT  180
VQQGQLIQCS NNSSILQPQY CSTSSGDVFV GRVGGDNGGA SSLVEPNSLL PAWMIRPTTN  240
E
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A6e-22190189MEF2C
5f28_B6e-22190189MEF2C
5f28_C6e-22190189MEF2C
5f28_D6e-22190189MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankSAU256950.0U25695.1 Sinapis alba transcription factor SaMADS B mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018490011.11e-176PREDICTED: agamous-like MADS-box protein AGL8 homolog
SwissprotQ412741e-164AGL8_SINAL; Agamous-like MADS-box protein AGL8 homolog
TrEMBLA0A2Z5UI051e-164A0A2Z5UI05_ISATI; Fruitfull protein
STRINGBo7g098190.11e-164(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM79225110
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60910.11e-154AGAMOUS-like 8
Publications ? help Back to Top
  1. Menzel G,Apel K,Melzer S
    Identification of two MADS box genes that are expressed in the apical meristem of the long-day plant Sinapis alba in transition to flowering.
    Plant J., 1996. 9(3): p. 399-408
    [PMID:8919916]