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_01425.1_g00009.1
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: 302aa    MW: 33845.5 Da    PI: 6.5089
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01425.1_g00009.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.21.2e-29959151
                             S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                   SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                             krien++nrqvt+skRrng++KKA+EL vLCda+v++i+fss++kl+e++s
  Rsa1.0_01425.1_g00009.1  9 KRIENQTNRQVTYSKRRNGLFKKAHELTVLCDARVSIIMFSSSNKLHEFIS 59
                             79***********************************************86 PP
2K-box59.71.2e-2071142172
                    K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnel 72 
                              yq+ s++++++a++e++q+  +kL + ++nL+++++++lGe+L++L+++eL++Le+++e+  k +R++Kn+ 
  Rsa1.0_01425.1_g00009.1  71 YQTVSDVDVWSAHYERMQETKRKLLETNRNLRTQIKQRLGECLDELDIQELRSLEEEMENTFKLVRERKNKS 142
                              78899999**************************************************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.7E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.226161IPR002100Transcription factor, MADS-box
CDDcd002651.10E-41280No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.62E-36394IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-28323IPR002100Transcription factor, MADS-box
PfamPF003193.0E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004041.5E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.6E-1082143IPR002487Transcription factor, K-box
PROSITE profilePS5129711.2784186IPR002487Transcription 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: 302 aa     Download sequence    Send to blast
MARGKIQIKR IENQTNRQVT YSKRRNGLFK KAHELTVLCD ARVSIIMFSS SNKLHEFISP  60
NTSTKEIIDL YQTVSDVDVW SAHYERMQET KRKLLETNRN LRTQIKQRLG ECLDELDIQE  120
LRSLEEEMEN TFKLVRERKN KSQQDIQKNL IHELELRAED PHYGLVDNGG DYDSVLGYQL  180
RFHQNHHHNY PNHALHSASA SDIITFHLLD ARLVSNANGG DVVPMAMGVC GGQKEDGPIG  240
ILKCVEDETL VVSVIVVVVG CVVDETLVVR GSVVVVGSVV VKALVVSGCT DSNIGDSASV  300
IL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A1e-16161161MEF2 CHIMERA
6bz1_B1e-16161161MEF2 CHIMERA
6bz1_C1e-16161161MEF2 CHIMERA
6bz1_D1e-16161161MEF2 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 PISTILLATA 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01425.1_g00009.1
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
GenBankAY3139410.0AY313941.1 Brassica napus APETALA3-2 mRNA, complete cds.
GenBankBOU674550.0U67455.1 Brassica oleracea homeotic protein boi2AP3 (Boi2AP3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018480988.11e-152PREDICTED: floral homeotic protein APETALA 3-like
SwissprotP356321e-141AP3_ARATH; Floral homeotic protein APETALA 3
TrEMBLA0A3N6S6L21e-151A0A3N6S6L2_BRACR; Uncharacterized protein
STRINGBra014822.1-P1e-149(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52612750
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54340.11e-142MIKC_MADS family protein
Publications ? help Back to Top
  1. Furner I,Ellis L,Bakht S,Mirza B,Sheikh M
    CAUT lines: a novel resource for studies of cell autonomy in Arabidopsis.
    Plant J., 2008. 53(4): p. 645-60
    [PMID:18269574]
  2. Jing D, et al.
    Two ancestral APETALA3 homologs from the basal angiosperm Magnolia wufengensis (Magnoliaceae) can affect flower development of Arabidopsis.
    Gene, 2014. 537(1): p. 100-7
    [PMID:24334124]
  3. 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]
  4. Nakamura Y,Liu YC,Lin YC
    Floral glycerolipid profiles in homeotic mutants of Arabidopsis thaliana.
    Biochem. Biophys. Res. Commun., 2014. 450(4): p. 1272-5
    [PMID:24984150]
  5. 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]
  6. Chen Z, et al.
    Overexpression of AtAP1M3 regulates flowering time and floral development in Arabidopsis and effects key flowering-related genes in poplar.
    Transgenic Res., 2015. 24(4): p. 705-15
    [PMID:25820621]
  7. Yunus IS, et al.
    Phosphatidic acid is a major phospholipid class in reproductive organs of Arabidopsis thaliana.
    Plant Signal Behav, 2015. 10(8): p. e1049790
    [PMID:26179579]
  8. Sun JJ, et al.
    CsAP3: A Cucumber Homolog to Arabidopsis APETALA3 with Novel Characteristics.
    Front Plant Sci, 2016. 7: p. 1181
    [PMID:27540391]