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 XP_009116562.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 245aa    MW: 27756.3 Da    PI: 9.4127
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009116562.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.94e-312474151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+s
  XP_009116562.1 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYAS 74
                    79***********************************************86 PP
2K-box113.42.2e-3796187899
           K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      ++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskK+ell+++ie++qk+e elq++n++Lr+k+e
  XP_009116562.1  96 TVTEANTKYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKSELLVAEIEYMQKREMELQHDNMYLRAKIE 187
                     4899**************************************************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.6411676IPR002100Transcription factor, MADS-box
SMARTSM004322.1E-401675IPR002100Transcription factor, MADS-box
CDDcd002651.21E-441790No hitNo description
SuperFamilySSF554554.58E-331788IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-331838IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PfamPF003193.2E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-333853IPR002100Transcription factor, MADS-box
PRINTSPR004047.9E-335374IPR002100Transcription factor, MADS-box
PfamPF014863.4E-27100186IPR002487Transcription factor, K-box
PROSITE profilePS5129714.987102192IPR002487Transcription 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: 245 aa     Download sequence    Send to blast
MDEGGSSHDA ESSKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VIFSTRGRLY EYASNSVKGT IERYKKACSD AVNPPTVTEA NTKYYQQEAS KLRRQIRDIQ  120
NSNRHIVGES LGSLNFKELK NLEGRLEKGI SRVRSKKSEL LVAEIEYMQK REMELQHDNM  180
YLRAKIEQGA RLNPEQHGSG VIQGTAVYES GLSSSHDQSQ HYIPVNLLEP NQQFSGQDQP  240
PLQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P8e-211684169Myocyte-specific enhancer factor 2B
1tqe_Q8e-211684169Myocyte-specific enhancer factor 2B
1tqe_R8e-211684169Myocyte-specific enhancer factor 2B
1tqe_S8e-211684169Myocyte-specific enhancer factor 2B
5f28_A9e-211684169MEF2C
5f28_B9e-211684169MEF2C
5f28_C9e-211684169MEF2C
5f28_D9e-211684169MEF2C
6c9l_A8e-211684169Myocyte-specific enhancer factor 2B
6c9l_B8e-211684169Myocyte-specific enhancer factor 2B
6c9l_C8e-211684169Myocyte-specific enhancer factor 2B
6c9l_D8e-211684169Myocyte-specific enhancer factor 2B
6c9l_E8e-211684169Myocyte-specific enhancer factor 2B
6c9l_F8e-211684169Myocyte-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009116562.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0360620.0AY036062.1 Brassica napus SHATTERPROOF1 (BnSHP1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116562.10.0PREDICTED: agamous-like MADS-box protein AGL1
SwissprotP293811e-167AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLM4CT770.0M4CT77_BRARP; Uncharacterized protein
STRINGBra007419.1-P0.0(Brassica rapa)
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-157MIKC_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]