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 RrC15922_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: 203aa    MW: 23597.4 Da    PI: 9.1601
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC15922_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF801.6e-25958150
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                 krien  nr vtfskRrng+ KKA+E+ vLCda+va+iif+s+gk+ +y+
  RrC15922_p1  9 KRIENANNRVVTFSKRRNGLVKKAKEITVLCDAKVALIIFASNGKMTDYC 58
                 79*********************************************997 PP
2K-box60.37.7e-2171164199
        K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkl 98 
                  yqk sgk+l+++k+e+l++e++++kke+++Lq e+Rhl+Ged++sL+lk+L+ +e+++e++l      K+e+l+++ ++ ++  +e+++   +L+++ 
  RrC15922_p1  71 YQKLSGKKLWDTKHENLNNEIDRIKKENDSLQLELRHLKGEDIQSLNLKNLMAVEHAIEHGLD-----KMEFLMTKRRNEKMLVEENRQLSFQLQQQE 163
                  899***********************************************************6.....89************************9987 PP

        K-box  99 e 99 
                  +
  RrC15922_p1 164 M 164
                  5 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.375161IPR002100Transcription factor, MADS-box
SMARTSM004326.6E-38160IPR002100Transcription factor, MADS-box
CDDcd002657.83E-38280No hitNo description
SuperFamilySSF554556.8E-34296IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.4E-221057IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004044.4E-263859IPR002100Transcription factor, MADS-box
PfamPF014869.1E-1282159IPR002487Transcription factor, K-box
PROSITE profilePS5129710.68984165IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
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: 203 aa     Download sequence    Send to blast
MGRGKIEIKR IENANNRVVT FSKRRNGLVK KAKEITVLCD AKVALIIFAS NGKMTDYCCP  60
SMDLGAMLDQ YQKLSGKKLW DTKHENLNNE IDRIKKENDS LQLELRHLKG EDIQSLNLKN  120
LMAVEHAIEH GLDKMEFLMT KRRNEKMLVE ENRQLSFQLQ QQEMAIASNT RGMMMRDQDE  180
QFGYRVQPIQ PNLQEKIMSL VID
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A2e-16191183MEF2 CHIMERA
6bz1_B2e-16191183MEF2 CHIMERA
6bz1_C2e-16191183MEF2 CHIMERA
6bz1_D2e-16191183MEF2 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00080ChIP-seqTransfer from AT5G20240Download
Motif logo
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9679610.0KC967961.1 Brassica oleracea var. viridis PI.a (PI.a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018468560.11e-146PREDICTED: floral homeotic protein PISTILLATA-like isoform X1
RefseqXP_018468565.11e-146PREDICTED: floral homeotic protein PISTILLATA-like isoform X1
SwissprotP480071e-138PIST_ARATH; Floral homeotic protein PISTILLATA
TrEMBLA0A078DHV71e-142A0A078DHV7_BRANA; BnaCnng36180D protein
TrEMBLA0A3P6ABW41e-142A0A3P6ABW4_BRAOL; Uncharacterized protein
STRINGBra020093.1-P1e-142(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-141MIKC_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]