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 Rsa1.0_00554.1_g00002.1
Organism
Raphanus sativus
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: 260aa    MW: 29694.4 Da    PI: 8.5591
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00554.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.16.5e-303584150
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                             krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva+++fs++g+lyey+
  Rsa1.0_00554.1_g00002.1 35 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVVFSTRGRLYEYA 84
                             79***********************************************8 PP
2K-box111.87e-37107198899
                    K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                               ++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell++++e++ k+e elq++n++
  Rsa1.0_00554.1_g00002.1 107 TVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNELLVAEMEYMHKREMELQHDNMY 192
                              4899********************************************************************************** PP

                    K-box  94 Lrkkle 99 
                              Lr+k++
  Rsa1.0_00554.1_g00002.1 193 LRAKIA 198
                              ****97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004324.0E-382786IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.0712787IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.44E-3129100IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-322949IPR002100Transcription factor, MADS-box
PROSITE patternPS0035002983IPR002100Transcription factor, MADS-box
CDDcd002655.11E-4329101No hitNo description
PfamPF003194.2E-263683IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-324964IPR002100Transcription factor, MADS-box
PRINTSPR004045.9E-326485IPR002100Transcription factor, MADS-box
PfamPF014863.5E-27111197IPR002487Transcription factor, K-box
PROSITE profilePS5129715.15113203IPR002487Transcription 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: 260 aa     Download sequence    Send to blast
MFYSSGDIAE SMEEGGSSHD PESNKKLVRG KIEIKRIENT TSRQVTFCKR RNGLLKKAYE  60
LSVLCDAEVA LVVFSTRGRL YEYANNSVKG TIERYKKACS DAVNPPTVTE ANTQYYQQEA  120
SKLRRQIRDI QNSNRHIVGE SLGSLNFKEL KNLEGRLEKG ISRVRSKKNE LLVAEMEYMH  180
KREMELQHDN MYLRAKIAHC GRLDPEQQES SVIQGTAVYE SGLSSSHDQL QNYNRSYIPV  240
NLLEPNQQFS GQDQPPLQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A7e-182995268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B7e-182995268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C7e-182995268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D7e-182995268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1tqe_P9e-182995369Myocyte-specific enhancer factor 2B
1tqe_Q9e-182995369Myocyte-specific enhancer factor 2B
1tqe_R9e-182995369Myocyte-specific enhancer factor 2B
1tqe_S9e-182995369Myocyte-specific enhancer factor 2B
3p57_A9e-182995268Myocyte-specific enhancer factor 2A
3p57_B9e-182995268Myocyte-specific enhancer factor 2A
3p57_C9e-182995268Myocyte-specific enhancer factor 2A
3p57_D9e-182995268Myocyte-specific enhancer factor 2A
3p57_I9e-182995268Myocyte-specific enhancer factor 2A
3p57_J9e-182995268Myocyte-specific enhancer factor 2A
6c9l_A9e-182995369Myocyte-specific enhancer factor 2B
6c9l_B9e-182995369Myocyte-specific enhancer factor 2B
6c9l_C9e-182995369Myocyte-specific enhancer factor 2B
6c9l_D9e-182995369Myocyte-specific enhancer factor 2B
6c9l_E9e-182995369Myocyte-specific enhancer factor 2B
6c9l_F9e-182995369Myocyte-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
PlantRegMapRsa1.0_00554.1_g00002.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJQ9730840.0JQ973084.1 Brassica napus Shatterproof (SHP1a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138935.11e-176PREDICTED: agamous-like MADS-box protein AGL1
RefseqXP_013746379.11e-176agamous-like MADS-box protein AGL1
RefseqXP_022573603.11e-176agamous-like MADS-box protein AGL1
SwissprotP293811e-168AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A397ZQU61e-175A0A397ZQU6_BRACM; Uncharacterized protein
TrEMBLM4DDI41e-175M4DDI4_BRARP; 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
AT3G58780.11e-170MIKC_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]