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_01119.1_g00015.1
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: 226aa    MW: 25980.6 Da    PI: 9.9939
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01119.1_g00015.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF978e-31959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krienk+nrqvtf+kRrng+lKKA+ELSvLCdae+a++ifs++gklye++s
  Rsa1.0_01119.1_g00015.1  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEIALLIFSNRGKLYEFCS 59
                             79***********************************************96 PP
2K-box82.59.8e-28821748100
                    K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                              ++++++ ++ ++++ +Lk++ e Lqr+qRhllGe++  + ++eL+qLe+q++ sl++iRs+K +++l+q+++l+ ke+ l e+n++
  Rsa1.0_01119.1_g00015.1  82 NQSDKDLQEKYKDYLNLKSRAEILQRSQRHLLGEEIAGMGVNELEQLERQVDASLRQIRSTKARFMLDQLSDLKTKEEILLETNRD 167
                              3789999******************************************************************************* PP

                    K-box  94 Lrkklee 100
                              L++klee
  Rsa1.0_01119.1_g00015.1 168 LKRKLEE 174
                              ****987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.0E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.137161IPR002100Transcription factor, MADS-box
CDDcd002651.73E-41277No hitNo description
SuperFamilySSF554557.98E-33285IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-32323IPR002100Transcription factor, MADS-box
PfamPF003191.5E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-323859IPR002100Transcription factor, MADS-box
PfamPF014861.8E-2385172IPR002487Transcription factor, K-box
PROSITE profilePS5129713.91588178IPR002487Transcription 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: 226 aa     Download sequence    Send to blast
MGRGKVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEIALLIFSN RGKLYEFCSS  60
PSGMTKTVEK YRKHSYATME PNQSDKDLQE KYKDYLNLKS RAEILQRSQR HLLGEEIAGM  120
GVNELEQLER QVDASLRQIR STKARFMLDQ LSDLKTKEEI LLETNRDLKR KLEESDARLT  180
QSLWGASSSA EPSQKQQQQQ QGMSSYQTKV PTQEAGFFKP LQGNVA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A4e-22761721101Developmental protein SEPALLATA 3
4ox0_B4e-22761721101Developmental protein SEPALLATA 3
4ox0_C4e-22761721101Developmental protein SEPALLATA 3
4ox0_D4e-22761721101Developmental protein SEPALLATA 3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that binds specifically to the CArG box DNA sequence 5'-CC (A/T)6 GG-3' (PubMed:7632923, PubMed:25183521). Plays an important role in the determination of flower meristem identity. Involved in the specification of sepal identity. Contributes to the development of petals, stamens and carpels (PubMed:15530395). {ECO:0000269|PubMed:15530395, ECO:0000269|PubMed:25183521, ECO:0000269|PubMed:7632923}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01119.1_g00015.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankATU813690.0U81369.1 Arabidopsis thaliana MADS box protein (AGL3) mRNA, complete cds.
GenBankAY0638940.0AY063894.1 Arabidopsis thaliana putative MADS-box protein AGL3 (At2g03710) mRNA, complete cds.
GenBankAY0963860.0AY096386.1 Arabidopsis thaliana putative MADS-box protein (AGL3) (At2g03710) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013723133.11e-142agamous-like MADS-box protein AGL3
SwissprotP293831e-136AGL3_ARATH; Agamous-like MADS-box protein AGL3
TrEMBLA0A397XVH41e-141A0A397XVH4_BRACM; Uncharacterized protein
STRINGBra025126.1-P1e-139(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM71352440
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G03710.11e-128MIKC_MADS family protein
Publications ? help Back to Top
  1. Maejima K, et al.
    Degradation of class E MADS-domain transcription factors in Arabidopsis by a phytoplasmal effector, phyllogen.
    Plant Signal Behav, 2015. 10(8): p. e1042635
    [PMID:26179462]