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 GSBRNA2T00098954001
Common NameGSBRNA2T00098954001
Organism
Brassica napus
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: 349aa    MW: 39771.4 Da    PI: 9.5593
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00098954001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.78.4e-30124173150
                          S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50 
                          krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+
  GSBRNA2T00098954001 124 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 173
                          79***********************************************8 PP
2K-box113.91.6e-37195287799
                K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrk 96 
                           s++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell+++ie++qk+e elq++n++Lr+
  GSBRNA2T00098954001 195 PSVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNELLMAEIEYMQKREMELQHDNMYLRA 284
                          45899************************************************************************************* PP

                K-box  97 kle 99 
                          k+ 
  GSBRNA2T00098954001 285 KIS 287
                          986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.113116176IPR002100Transcription factor, MADS-box
SMARTSM004324.4E-38116175IPR002100Transcription factor, MADS-box
CDDcd002651.51E-41118190No hitNo description
PRINTSPR004041.2E-31118138IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.35E-31118188IPR002100Transcription factor, MADS-box
PROSITE patternPS003500118172IPR002100Transcription factor, MADS-box
PfamPF003199.7E-26125172IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-31138153IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-31153174IPR002100Transcription factor, MADS-box
PfamPF014861.1E-27200286IPR002487Transcription factor, K-box
PROSITE profilePS5129715.643202292IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 349 aa     Download sequence    Send to blast
MIMTIRMIGH HLMDSLISCS LIKLSSHHFF SFLDPWSQIG LLKIRLTAKR GPTQEGKDKY  60
DVLGLEFSVE HVIKGCKSGF PTKNKLYGTK IEERIKIEES MEEGGSSHDA ESSKKLVRGK  120
IEIKRIENTT SRQVTFCKRR NGLLKKAYEL SVLCDAEVAL VIFSTRGRLY EYANNSVKGT  180
IERYKKACSD AVNPPSVTEA NTQYYQQEAS KLRRQIRDIQ NSNRHIVGES LGSLNFKELK  240
NLEGRLEKGI SRVRSKKNEL LMAEIEYMQK REMELQHDNM YLRAKISQGA RLNPEQQDSS  300
VIQGTAVYES GLSSHDQSQH YNRNYIPVNL LEPNQQFSGQ DQPPLQLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A2e-17118184268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B2e-17118184268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C2e-17118184268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D2e-17118184268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1tqe_P2e-17118184369Myocyte-specific enhancer factor 2B
1tqe_Q2e-17118184369Myocyte-specific enhancer factor 2B
1tqe_R2e-17118184369Myocyte-specific enhancer factor 2B
1tqe_S2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_A2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_B2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_C2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_D2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_E2e-17118184369Myocyte-specific enhancer factor 2B
6c9l_F2e-17118184369Myocyte-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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00093SELEXTransfer from AT3G58780Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00098954001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMap-Retrieve
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_009104172.10.0PREDICTED: agamous-like MADS-box protein AGL1
SwissprotP293811e-176AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A3P6BT970.0A0A3P6BT97_BRACM; Uncharacterized protein
STRINGBra003356.1-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-176MIKC_MADS family protein
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. 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]
  3. 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]