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_009104172.1
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: 248aa    MW: 28354.9 Da    PI: 9.3908
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009104172.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.54.9e-302473150
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                    krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+
  XP_009104172.1 24 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 73
                    79***********************************************8 PP
2K-box114.88e-3895187799
           K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      s++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell+++ie++qk+e elq++n++Lr+k+ 
  XP_009104172.1  95 PSVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNELLMAEIEYMQKREMELQHDNMYLRAKIS 187
                     45899*************************************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.1131676IPR002100Transcription factor, MADS-box
SMARTSM004324.4E-381675IPR002100Transcription factor, MADS-box
CDDcd002658.62E-431890No hitNo description
PRINTSPR004045.3E-321838IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.18E-311888IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PfamPF003195.7E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004045.3E-323853IPR002100Transcription factor, MADS-box
PRINTSPR004045.3E-325374IPR002100Transcription factor, MADS-box
PfamPF014865.8E-28100186IPR002487Transcription factor, K-box
PROSITE profilePS5129715.643102192IPR002487Transcription 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: 248 aa     Download sequence    Send to blast
MEEGGSSHDA ESSKKLVRGK IEIKRIENTT SRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VIFSTRGRLY EYANNSVKGT IERYKKACSD AVNPPSVTEA NTQYYQQEAS KLRRQIRDIQ  120
NSNRHIVGES LGSLNFKELK NLEGRLEKGI SRVRSKKNEL LMAEIEYMQK REMELQHDNM  180
YLRAKISQGA RLNPEQQDSS VIQGTAVYES GLSSHDQSQH YNRNYIPVNL LEPNQQFSGQ  240
DQPPLQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A3e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B3e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C3e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D3e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A4e-181884268Myocyte-specific enhancer factor 2A
3kov_B4e-181884268Myocyte-specific enhancer factor 2A
3kov_I4e-181884268Myocyte-specific enhancer factor 2A
3kov_J4e-181884268Myocyte-specific enhancer factor 2A
3p57_A4e-181884268Myocyte-specific enhancer factor 2A
3p57_B4e-181884268Myocyte-specific enhancer factor 2A
3p57_C4e-181884268Myocyte-specific enhancer factor 2A
3p57_D4e-181884268Myocyte-specific enhancer factor 2A
3p57_I4e-181884268Myocyte-specific enhancer factor 2A
3p57_J4e-181884268Myocyte-specific enhancer factor 2A
6c9l_A4e-181884369Myocyte-specific enhancer factor 2B
6c9l_B4e-181884369Myocyte-specific enhancer factor 2B
6c9l_C4e-181884369Myocyte-specific enhancer factor 2B
6c9l_D4e-181884369Myocyte-specific enhancer factor 2B
6c9l_E4e-181884369Myocyte-specific enhancer factor 2B
6c9l_F4e-181884369Myocyte-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
PlantRegMapXP_009104172.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
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-178AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A397YMG90.0A0A397YMG9_BRACM; Uncharacterized protein
STRINGBo6g076090.11e-179(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-180MIKC_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]