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_009139036.1
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: 264aa    MW: 29725.2 Da    PI: 5.1261
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009139036.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF871e-271666151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    k+ien   rqvtfskRrng++KKA+ELS+LCdaevavi+fsstgk y++ss
  XP_009139036.1 16 KKIENVNSRQVTFSKRRNGLMKKANELSILCDAEVAVIVFSSTGKAYDFSS 66
                    68***********************************************96 PP
2K-box55.52.4e-191111872399
           K-box  23 kLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      L++e+e Lq  + +l+G++Le +s+ +L +Le+qL +sl +++++K++lll+q+e+++ +ek++ een+ Lrk+++
  XP_009139036.1 111 PLRSELERLQLAIERLKGKELEGMSFSDLISLENQLSDSLHSVKDRKTQLLLNQVERSRLQEKRALEENQILRKQID 187
                     6999**********************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF554551.7E-31879IPR002100Transcription factor, MADS-box
SMARTSM004327.1E-40867IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.763868IPR002100Transcription factor, MADS-box
CDDcd002652.38E-40976No hitNo description
PRINTSPR004042.1E-281030IPR002100Transcription factor, MADS-box
PfamPF003191.2E-261764IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-283045IPR002100Transcription factor, MADS-box
PRINTSPR004042.1E-284566IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.533102192IPR002487Transcription factor, K-box
PfamPF014865.5E-16110186IPR002487Transcription 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: 264 aa     Download sequence    Send to blast
MQYPNFEMGR GRIEIKKIEN VNSRQVTFSK RRNGLMKKAN ELSILCDAEV AVIVFSSTGK  60
AYDFSSGSME HILSRYGYSA VTAGHRQREE QQQLLLCSSQ DNGDVLRTDE PLRSELERLQ  120
LAIERLKGKE LEGMSFSDLI SLENQLSDSL HSVKDRKTQL LLNQVERSRL QEKRALEENQ  180
ILRKQIDMLA MSGPKPLSEI PQFSSPQAEP ESSSSDDDNE NDNEEHPSDT SLQLGLSSSA  240
YFAKRKKPKI EPPCDNSGSQ VASD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A8e-20876169MEF2C
5f28_B8e-20876169MEF2C
5f28_C8e-20876169MEF2C
5f28_D8e-20876169MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.231610.0flower| leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the reproductive phase, accumulates in immature buds and at the base of the floral organs, and in the receptacle, ovules, anther filaments, and stigma and style of open flowers. Later observed in sporogenous tissue of anthers. During male gametogenesis, expressed in the microspores before they separate from each other. Later present at high levels within pollen grains up to stage 13 of flower development, when anthers dehisce. During carpel development, first detected in developing ovules. After fertilization, confined to globular structures or nodules of proliferating free nuclear endosperm required for embryo development. Disappears from the endosperm at to the heart stage of embryo development, when very little nuclear endosperm remains. Never detected in developing embryos at any stage. In young seedlings, present everywhere except in a portion of the hypocotyl and in newly emerging leaves. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:17521410}.
UniprotTISSUE SPECIFICITY: Mostly expressed in pollen, roots, flowers and siliques, and to a lower extent, in stems and leaves. Expressed in the endosperm and in developing male and female gametophytes. Also present in seedlings. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:16028119, ECO:0000269|PubMed:17521410}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Prevents premature flowering. Downstream regulator of a subset of the MIKC* MADS-controlled genes required during pollen maturation. {ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:18034896, ECO:0000269|PubMed:18799658}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009139036.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018513743.10.0PREDICTED: agamous-like MADS-box protein AGL18 isoform X1
SwissprotQ9M2K81e-126AGL18_ARATH; Agamous-like MADS-box protein AGL18
TrEMBLA0A397ZJ940.0A0A397ZJ94_BRACM; Uncharacterized protein
STRINGBra014628.1-P1e-166(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM60612139
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57390.11e-113AGAMOUS-like 18