PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID GSBRNA2T00149118001
Common NameGSBRNA2T00149118001
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: 277aa    MW: 31834.2 Da    PI: 9.4052
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00149118001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.97.3e-302473150
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                         krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva+++fs++g+lyey+
  GSBRNA2T00149118001 24 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVVFSTRGRLYEYA 73
                         79***********************************************8 PP
2K-box112.54.1e-37124215899
                K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkk 97 
                           ++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell++++e++qk+e elq++n++Lr+k
  GSBRNA2T00149118001 124 TVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGINRVRSKKNELLVAELEYMQKREIELQHDNMYLRAK 213
                          4899*************************************************************************************9 PP

                K-box  98 le 99 
                          + 
  GSBRNA2T00149118001 214 IT 215
                          85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006631.9311676IPR002100Transcription factor, MADS-box
SMARTSM004324.0E-381675IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.98E-2918104IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-321838IPR002100Transcription factor, MADS-box
CDDcd002655.63E-3718118No hitNo description
PfamPF003194.6E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-323853IPR002100Transcription factor, MADS-box
PRINTSPR004046.8E-325374IPR002100Transcription factor, MADS-box
PfamPF014869.7E-27128214IPR002487Transcription factor, K-box
PROSITE profilePS5129714.877130220IPR002487Transcription 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: 277 aa     Download sequence    Send to blast
MEEGGSSHDA ESNKKLVRGK IEIKRIENTT SRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VVFSTRGRLY EYANNRKYLS CLLNSLAVFS FTRFMKHWNL MHVCVKGTIE RYKKACSDAV  120
NPPTVTEANT QYYQQEASKL RRQIRDIQNS NRHIVGESLG SLNFKELKNL EGRLEKGINR  180
VRSKKNELLV AELEYMQKRE IELQHDNMYL RAKITHCARL DPEQQESSVI QGTAVYESGL  240
SSHDQSQNYN RSYIPVNLLE PNQQFSGQDQ PPLQLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P1e-161875360Myocyte-specific enhancer factor 2B
1tqe_Q1e-161875360Myocyte-specific enhancer factor 2B
1tqe_R1e-161875360Myocyte-specific enhancer factor 2B
1tqe_S1e-161875360Myocyte-specific enhancer factor 2B
6c9l_A1e-161875360Myocyte-specific enhancer factor 2B
6c9l_B1e-161875360Myocyte-specific enhancer factor 2B
6c9l_C1e-161875360Myocyte-specific enhancer factor 2B
6c9l_D1e-161875360Myocyte-specific enhancer factor 2B
6c9l_E1e-161875360Myocyte-specific enhancer factor 2B
6c9l_F1e-161875360Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.142120.0seed
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
PlantRegMapGSBRNA2T00149118001
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_009138935.11e-177PREDICTED: agamous-like MADS-box protein AGL1
RefseqXP_013746379.11e-177agamous-like MADS-box protein AGL1
RefseqXP_022573603.11e-177agamous-like MADS-box protein AGL1
SwissprotP293811e-164AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A3P6CSP70.0A0A3P6CSP7_BRACM; Uncharacterized protein
STRINGBra014552.1-P1e-176(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
AT3G58780.31e-169MIKC_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]