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 RrC3472_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: 272aa    MW: 31082.1 Da    PI: 9.1135
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3472_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.35.7e-302574150
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+
  RrC3472_p1 25 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 74
                79***********************************************8 PP
2K-box104.41.4e-34991831397
       K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                 ++ + qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell+++i+++qk+e elq++n++Lr+k
  RrC3472_p1  99 TETNTQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNELLMAEIDYMQKREMELQHDNMYLRAK 183
                 457899*****************************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.9731777IPR002100Transcription factor, MADS-box
SMARTSM004325.7E-381776IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-321939IPR002100Transcription factor, MADS-box
CDDcd002659.94E-431991No hitNo description
PROSITE patternPS0035001973IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.35E-311989IPR002100Transcription factor, MADS-box
PfamPF003196.6E-262673IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-323954IPR002100Transcription factor, MADS-box
PRINTSPR004047.2E-325475IPR002100Transcription factor, MADS-box
PROSITE profilePS5129714.506100190IPR002487Transcription factor, K-box
PfamPF014862.6E-27100183IPR002487Transcription 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: 272 aa     Download sequence    Send to blast
MEEEGGNSHD AENSKKLVRG KIQIKRIENT TSRQVTFCKR RNGLLKKAYE LSVLCDAEVA  60
LVIFSTRGRL YEYANNSVKG TIERYKKACS DAINPPSVTE TNTQQEASKL RRQIRDIQNS  120
NRHIVGESLG SLNFKELKNL EGRLEKGISR VRSKKNELLM AEIDYMQKRE MELQHDNMYL  180
RAKASLNLCS FHHHLPMCNK TSFDVRSLQI SQGARLNPEQ QDSSVIQGTA VYESGLSSHD  240
QSQHYNRNYI PVNLLEPNQE FSGQDQPPLQ LV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P1e-1819114393Myocyte-specific enhancer factor 2B
1tqe_Q1e-1819114393Myocyte-specific enhancer factor 2B
1tqe_R1e-1819114393Myocyte-specific enhancer factor 2B
1tqe_S1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_A1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_B1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_C1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_D1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_E1e-1819114393Myocyte-specific enhancer factor 2B
6c9l_F1e-1819114393Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269|PubMed:27776173}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJQ9730850.0JQ973085.1 Brassica napus Shatterproof (SHP1b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009104172.11e-168PREDICTED: agamous-like MADS-box protein AGL1
SwissprotP293811e-162AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A397YMG91e-167A0A397YMG9_BRACM; Uncharacterized protein
STRINGBo6g076090.11e-164(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33412350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.11e-164MIKC_MADS family protein
Publications ? help Back to Top
  1. Matalon O, et al.
    Dephosphorylation of the adaptor LAT and phospholipase C-γ by SHP-1 inhibits natural killer cell cytotoxicity.
    Sci Signal, 2016. 9(429): p. ra54
    [PMID:27221712]
  2. Ehlers K, et al.
    The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana.
    PLoS ONE, 2016. 11(10): p. e0165075
    [PMID:27776173]