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 RrC17408_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: 141aa    MW: 16256.8 Da    PI: 10.6823
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC17408_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.74.8e-261059251
                 ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
       SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                 ri++++ rqvtfskRr+g++KKA+EL +LCdaev +iifs+t+kly+++s
  RrC17408_p1 10 RIDDSTSRQVTFSKRRKGLIKKAKELAILCDAEVGLIIFSNTDKLYDFAS 59
                 8***********************************************86 PP
2K-box57.84.8e-2081141969
        K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskK 69 
                  + +++ + +q+e++ L++e+++Lq+++R+l G++L+ Ls+keL+++e+qLe sl+ iR kK
  RrC17408_p1  81 NPASEVKFWQREATTLRQELHSLQETHRQLTGQQLNGLSVKELHNIESQLEMSLRGIRIKK 141
                  567889****************************************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.319161IPR002100Transcription factor, MADS-box
SMARTSM004321.9E-37160IPR002100Transcription factor, MADS-box
CDDcd002651.21E-38278No hitNo description
SuperFamilySSF554559.68E-31290IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.9E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004042.3E-263859IPR002100Transcription factor, MADS-box
PfamPF014861.0E-1784141IPR002487Transcription factor, K-box
PROSITE profilePS5129711.01686141IPR002487Transcription 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: 141 aa     Download sequence    Send to blast
MGRGKIVIQR IDDSTSRQVT FSKRRKGLIK KAKELAILCD AEVGLIIFSN TDKLYDFASS  60
SLKSTIERFN KTKMEQQQLL NPASEVKFWQ REATTLRQEL HSLQETHRQL TGQQLNGLSV  120
KELHNIESQL EMSLRGIRIK K
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A7e-20169169MEF2C
5f28_B7e-20169169MEF2C
5f28_C7e-20169169MEF2C
5f28_D7e-20169169MEF2C
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
GenBankAB4935581e-136AB493558.1 Arabidopsis thaliana At2g22630 mRNA for hypothetical protein, partial cds, clone: RAAt2g22630.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018438025.14e-98PREDICTED: agamous-like MADS-box protein AGL17 isoform X2
SwissprotQ388408e-88AGL17_ARATH; Agamous-like MADS-box protein AGL17
TrEMBLM4FFP78e-96M4FFP7_BRARP; Uncharacterized protein
STRINGBra039921.1-P1e-96(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22630.14e-90AGAMOUS-like 17
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. 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]