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 XP_009113783.1
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: 252aa    MW: 29221.1 Da    PI: 7.9926
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009113783.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF95.72.1e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krienk+nrqvtf+kRrng+lKKA+ELSvLCdaeva+iifss+gk ye++s
  XP_009113783.1  9 KRIENKINRQVTFAKRRNGLLKKAYELSVLCDAEVALIIFSSRGKQYEFCS 59
                    79***********************************************96 PP
2K-box92.66.6e-31911741598
           K-box  15 eslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                      ++qqe+ kLk++++ Lqr+qR+llGedL++Ls keL+ Le+qL++slk+iR+ +++++l+q+++lq ke++l e+nk+Lr +l
  XP_009113783.1  91 LNSQQEYLKLKERYDALQRTQRNLLGEDLGPLSTKELELLERQLDSSLKQIRALRTQFMLDQLNDLQSKERMLAETNKTLRLRL 174
                     589*****************************************************************************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.828161IPR002100Transcription factor, MADS-box
SMARTSM004321.4E-40160IPR002100Transcription factor, MADS-box
CDDcd002651.05E-44276No hitNo description
SuperFamilySSF554553.14E-33275IPR002100Transcription factor, MADS-box
PRINTSPR004046.4E-32323IPR002100Transcription factor, MADS-box
PfamPF003192.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004046.4E-322338IPR002100Transcription factor, MADS-box
PRINTSPR004046.4E-323859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.05690180IPR002487Transcription factor, K-box
PfamPF014868.2E-2591174IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0001708Biological Processcell fate specification
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
GO:0048481Biological Processplant ovule development
GO:0048833Biological Processspecification of floral organ number
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: 252 aa     Download sequence    Send to blast
MGRGRVELKR IENKINRQVT FAKRRNGLLK KAYELSVLCD AEVALIIFSS RGKQYEFCSS  60
SSMLRTLDRY QKCNYGAPEP NVPSREALAE LNSQQEYLKL KERYDALQRT QRNLLGEDLG  120
PLSTKELELL ERQLDSSLKQ IRALRTQFML DQLNDLQSKE RMLAETNKTL RLRLADGYQM  180
PLQLNPNPED HHHVDYGRHQ QHEHSHQAFF QPLECEPILQ MGYQGQQDHG MGAGPSVNNY  240
MLGWLPYDTN SI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ox0_A1e-61751771104Developmental protein SEPALLATA 3
4ox0_B1e-61751771104Developmental protein SEPALLATA 3
4ox0_C1e-61751771104Developmental protein SEPALLATA 3
4ox0_D1e-61751771104Developmental protein SEPALLATA 3
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor active in inflorescence development and floral organogenesis.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00605ChIP-seqTransfer from AT1G24260Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009113783.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679600.0KC967960.1 Brassica oleracea var. viridis SEP3 (SEP3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009113783.10.0PREDICTED: agamous-like MADS-box protein AGL9 homolog isoform X2
SwissprotO040671e-170AGL9_SINAL; Agamous-like MADS-box protein AGL9 homolog
TrEMBLA0A397XY940.0A0A397XY94_BRACM; Uncharacterized protein
STRINGBra032814.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G24260.11e-166MIKC_MADS family protein
Publications ? help Back to Top
  1. Bonhomme F,Sommer H,Bernier G,Jacqmard A
    Characterization of SaMADS D from Sinapis alba suggests a dual function of the gene: in inflorescence development and floral organogenesis.
    Plant Mol. Biol., 1997. 34(4): p. 573-82
    [PMID:9247539]