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 RrC14020_p1
Organism
Raphanus raphanistrum
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: 249aa    MW: 28128.5 Da    PI: 9.9653
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC14020_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF85.82.5e-271058250
                 ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
       SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                 rienk++rqvtfskRr+g+ KK +E+SvLCda+va+i+fs++gkl+eys
  RrC14020_p1 10 RIENKIRRQVTFSKRRTGLVKKVQEISVLCDADVALIVFSPKGKLFEYS 58
                 8***********************************************8 PP
2K-box84.13e-28881731499
        K-box  14 aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                  + ++++e +kL + i+ +qr++Rhl+Ge+++ Ls++eLq Le qL++slk+ Rs+Kn+l++e+i +lqkkekel+e +k+L+kk++
  RrC14020_p1  88 QGECSTECSKLLRMIDAMQRSLRHLKGEEVDALSIRELQGLEVQLDTSLKRTRSRKNQLMVESIAQLQKKEKELKELKKQLTKKVD 173
                  467899******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.927161IPR002100Transcription factor, MADS-box
SMARTSM004327.7E-36160IPR002100Transcription factor, MADS-box
CDDcd002653.67E-38279No hitNo description
SuperFamilySSF554551.7E-30283IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-27323IPR002100Transcription factor, MADS-box
PfamPF003199.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-273859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-2387172IPR002487Transcription factor, K-box
PROSITE profilePS5129715.03488178IPR002487Transcription 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: 249 aa     Download sequence    Send to blast
MGRGRVQLRR IENKIRRQVT FSKRRTGLVK KVQEISVLCD ADVALIVFSP KGKLFEYSAG  60
SSMESILDRY ERCSFASQNI PTPSLDSQGE CSTECSKLLR MIDAMQRSLR HLKGEEVDAL  120
SIRELQGLEV QLDTSLKRTR SRKNQLMVES IAQLQKKEKE LKELKKQLTK KVDQREDIET  180
QNLSQGLVPL ATPPCEPPHP LPGPISPNPP LPLRNISQRN EVGEVDGGTL IIRPTNTTLP  240
HWMPRLTGE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-18170169MEF2C
5f28_B5e-18170169MEF2C
5f28_C5e-18170169MEF2C
5f28_D5e-18170169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
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_018481832.10.0PREDICTED: truncated transcription factor CAULIFLOWER A-like
SwissprotQ6E6S76e-73AP1_VITVI; Agamous-like MADS-box protein AP1
TrEMBLA0A397Z6R11e-148A0A397Z6R1_BRACM; Uncharacterized protein
STRINGXP_006395258.11e-138(Eutrema salsugineum)
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-113AGAMOUS-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]