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 RrC4693_p4
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: 231aa    MW: 26312.4 Da    PI: 5.4632
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4693_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.74.9e-31959151
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                krienk nrqvtfskR+ g+lKKA+ELSvLCd+eva+iifss+gklye+ss
  RrC4693_p4  9 KRIENKVNRQVTFSKRKGGLLKKAYELSVLCDVEVALIIFSSSGKLYEFSS 59
                79***********************************************96 PP
2K-box60.95e-2182154981
       K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelq 81 
                  e+++ +s++qe++ L++++e+L r++R llGedL+++s+keL+ Le+qLe +l+   ++K++ l +  ++l+
  RrC4693_p4  82 EESTEVQSWSQEVTELRSKYESLLRTHRYLLGEDLGEMSVKELETLERQLEGALSATMQRKERQLGDINKKLK 154
                 578999********************************************************99988777766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.847161IPR002100Transcription factor, MADS-box
SMARTSM004322.1E-37160IPR002100Transcription factor, MADS-box
CDDcd002651.50E-40274No hitNo description
SuperFamilySSF554552.49E-32375IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003193.5E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014864.6E-1682153IPR002487Transcription factor, K-box
PROSITE profilePS5129710.11487171IPR002487Transcription 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:0048481Biological Processplant ovule 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: 231 aa     Download sequence    Send to blast
MARGRVDVKR IENKVNRQVT FSKRKGGLLK KAYELSVLCD VEVALIIFSS SGKLYEFSSD  60
TMEKTIDRYN RCNNIWDNSR PEESTEVQSW SQEVTELRSK YESLLRTHRY LLGEDLGEMS  120
VKELETLERQ LEGALSATMQ RKERQLGDIN KKLKLEAEGH EFKGFQDLLL NSDDRAGSSD  180
FSLLSSHHIS VDCNVGQFLK IGFQQQYEQG DGSSVFKSNV GCDSETNFTQ G
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A2e-22184178MEF2 CHIMERA
6byy_B2e-22184178MEF2 CHIMERA
6byy_C2e-22184178MEF2 CHIMERA
6byy_D2e-22184178MEF2 CHIMERA
6bz1_A2e-22184178MEF2 CHIMERA
6bz1_B2e-22184178MEF2 CHIMERA
6bz1_C2e-22184178MEF2 CHIMERA
6bz1_D2e-22184178MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00417DAPTransfer from AT3G61120Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018482006.11e-158PREDICTED: agamous-like MADS-box protein AGL13
SwissprotQ388371e-101AGL13_ARATH; Agamous-like MADS-box protein AGL13
TrEMBLM4DD861e-147M4DD86_BRARP; Uncharacterized protein
STRINGBra014454.1-P1e-148(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43022654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G61120.11e-103AGAMOUS-like 13
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]