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 Rsa1.0_03253.1_g00005.1
Organism
Raphanus sativus
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: 26427.6 Da    PI: 6.3007
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03253.1_g00005.1genomeRGDView 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
  Rsa1.0_03253.1_g00005.1  9 KRIENKVNRQVTFSKRKGGLLKKAYELSVLCDVEVALIIFSSSGKLYEFSS 59
                             79***********************************************96 PP
2K-box61.24.1e-2182154981
                    K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelq 81 
                               e+++ +s++qe++ L++++e+L r++R llGedL+++s+keL+ Le+qLe++l+   ++K++ l +  ++l+
  Rsa1.0_03253.1_g00005.1  82 EESTQVQSWSQEVTELRSKYESLLRTHRYLLGEDLGEMSVKELETLERQLERALSATMQRKERQLGDINKKLK 154
                              67899*********************************************************99988777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004322.0E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.693161IPR002100Transcription factor, MADS-box
CDDcd002656.95E-41274No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-32378IPR002100Transcription factor, MADS-box
PfamPF003193.5E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014862.6E-1682153IPR002487Transcription factor, K-box
PROSITE profilePS5129710.40387172IPR002487Transcription 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
MARGRVNVKR IENKVNRQVT FSKRKGGLLK KAYELSVLCD VEVALIIFSS SGKLYEFSSD  60
TMEKTIERYN RCNNIWDNNR PEESTQVQSW SQEVTELRSK YESLLRTHRY LLGEDLGEMS  120
VKELETLERQ LERALSATMQ RKERQLGDIN KKLKLEAEGN 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
5f28_A2e-22184178MEF2C
5f28_B2e-22184178MEF2C
5f28_C2e-22184178MEF2C
5f28_D2e-22184178MEF2C
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03253.1_g00005.1
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-162PREDICTED: agamous-like MADS-box protein AGL13
SwissprotQ388374e-99AGL13_ARATH; Agamous-like MADS-box protein AGL13
TrEMBLM4DD861e-146M4DD86_BRARP; Uncharacterized protein
STRINGBra014454.1-P1e-147(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-101AGAMOUS-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]