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_00968.1_g00004.1
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: 248aa    MW: 28133.3 Da    PI: 9.2759
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00968.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF88.14.8e-281058250
                             ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                   SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                             rienk++rqvtfskRr+g+ KKA+E+SvLCda+va+i+f ++gkl+eys
  Rsa1.0_00968.1_g00004.1 10 RIENKIRRQVTFSKRRTGLVKKAQEISVLCDADVALIVFTPKGKLFEYS 58
                             8***********************************************8 PP
2K-box79.96.2e-27881731499
                    K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                              + ++++e +kL + i+ +q+++Rhl+Ge+++ Ls++eLq Le qL++sl++ Rs+Kn+l++e++ +lqkkekel+e +k+L kk++
  Rsa1.0_00968.1_g00004.1  88 QGECSTECSKLLRMIDAMQTSLRHLKGEEVDALSIRELQGLEMQLDTSLRRTRSRKNQLMVESLAQLQKKEKELKELKKQLIKKVD 173
                              457899*****************************************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.4E-35160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.333161IPR002100Transcription factor, MADS-box
CDDcd002658.30E-38279No hitNo description
SuperFamilySSF554553.14E-29282IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-28323IPR002100Transcription factor, MADS-box
PfamPF003197.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004049.8E-283859IPR002100Transcription factor, MADS-box
PfamPF014864.6E-2288172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.42788178IPR002487Transcription 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: 248 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KAQEISVLCD ADVALIVFTP KGKLFEYSAG  60
SSMERILVRY ERCSYAGQDI PTPNLDTQGE CSTECSKLLR MIDAMQTSLR HLKGEEVDAL  120
SIRELQGLEM QLDTSLRRTR SRKNQLMVES LAQLQKKEKE LKELKKQLIK KVDQSEDIEP  180
QNLSQGLAST PPCETPHLLP EPMSPHPPLS IGDTSQRNEV GEEDAGIVVR SGNTTLPHWM  240
PRLTESRR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-19170169MEF2C
5f28_B1e-19170169MEF2C
5f28_C1e-19170169MEF2C
5f28_D1e-19170169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00968.1_g00004.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1412380.0AY141238.1 Arabidopsis thaliana MADS-box protein AGL79 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018435652.10.0PREDICTED: truncated transcription factor CAULIFLOWER A-like
SwissprotQ6E6S72e-71AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A398AMD51e-152A0A398AMD5_BRACM; Uncharacterized protein
STRINGBo2g149440.11e-150(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM130331525
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G30260.11e-122AGAMOUS-like 79
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]