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 RrC1094_p2
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: 140aa    MW: 15954.5 Da    PI: 9.5491
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1094_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF80.79.5e-26958150
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                krien  nr vtfskRrng+ KKA+E+ vLCda+va+i+f+s+gk+ +y+
  RrC1094_p2  9 KRIENANNRVVTFSKRRNGLVKKAKEITVLCDAKVALIVFASNGKMTDYC 58
                79*********************************************997 PP
2K-box70.55.2e-2471139169
       K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskK 69 
                 yqk sgk+l++ak+e+l++e++++kke++nLq e+Rhl+Ged++sL+lk+L+ +e+++e++l k+R+++
  RrC1094_p2  71 YQKLSGKKLWDAKHENLSNEIDRIKKENDNLQLELRHLKGEDIQSLNLKNLMAVEHAIEHGLDKVRDHQ 139
                 899***************************************************************976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.333161IPR002100Transcription factor, MADS-box
SMARTSM004325.6E-38160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.62E-34296IPR002100Transcription factor, MADS-box
CDDcd002653.82E-38280No hitNo description
PRINTSPR004042.0E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.5E-221057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-263859IPR002100Transcription factor, MADS-box
PfamPF014861.2E-1482139IPR002487Transcription factor, K-box
PROSITE profilePS5129711.02284140IPR002487Transcription 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: 140 aa     Download sequence    Send to blast
MGRGKIEIKR IENANNRVVT FSKRRNGLVK KAKEITVLCD AKVALIVFAS NGKMTDYCCP  60
SMDLGAMLDQ YQKLSGKKLW DAKHENLSNE IDRIKKENDN LQLELRHLKG EDIQSLNLKN  120
LMAVEHAIEH GLDKVRDHQA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A2e-17191183MEF2 CHIMERA
6bz1_B2e-17191183MEF2 CHIMERA
6bz1_C2e-17191183MEF2 CHIMERA
6bz1_D2e-17191183MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the genetic control of flower development. Is required for normal development of petals and stamens in the wild-type flower. Forms a heterodimer with APETALA3 that is required for autoregulation of both AP3 and PI genes. AP3/PI heterodimer interacts with APETALA1 or SEPALLATA3 to form a ternary complex that could be responsible for the regulation of the genes involved in the flower development. AP3/PI heterodimer activates the expression of NAP. AP3/PI prevents GATA22/GNL and GATA21/GNC expression (PubMed:18417639). {ECO:0000269|PubMed:18417639, ECO:0000269|PubMed:8565821, ECO:0000269|PubMed:9489703}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Positively regulated by the meristem identity proteins APETALA1 and LEAFY with the cooperation of UFO. Repressed by silencing mediated by polycomb group (PcG) protein complex containing EMF1 and EMF2. {ECO:0000269|PubMed:11283333, ECO:0000269|PubMed:19783648}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679620.0KC967962.2 Brassica oleracea var. viridis PI.b (PI.b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001302977.11e-98floral homeotic protein PISTILLATA-like
SwissprotP480071e-97PIST_ARATH; Floral homeotic protein PISTILLATA
TrEMBLA0A3N6PUD37e-98A0A3N6PUD3_BRACR; Uncharacterized protein
TrEMBLA8V3453e-97A8V345_BRANA; PISTILLATA-1
STRINGBra006549.1-P6e-98(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53002751
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.11e-100MIKC_MADS family protein
Publications ? help Back to Top
  1. Zhang Y, et al.
    A cucumber DELLA homolog CsGAIP may inhibit staminate development through transcriptional repression of B class floral homeotic genes.
    PLoS ONE, 2014. 9(3): p. e91804
    [PMID:24632777]
  2. Jing D, et al.
    Ectopic expression of a Catalpa bungei (Bignoniaceae) PISTILLATA homologue rescues the petal and stamen identities in Arabidopsis pi-1 mutant.
    Plant Sci., 2015. 231: p. 40-51
    [PMID:25575990]
  3. Behrend A,Borchert T,Hohe A
    "The usual suspects"- analysis of transcriptome sequences reveals deviating B gene activity in C. vulgaris bud bloomers.
    BMC Plant Biol., 2015. 15: p. 8
    [PMID:25604890]
  4. Morroll SM,Wilson ZA
    Arabidopsis YAC restriction mapping.
    Genome, 1998. 41(6): p. 806-17
    [PMID:9924791]