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 XP_009116122.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 232aa    MW: 27282.8 Da    PI: 8.9542
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009116122.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.88.1e-30959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    krien++nrqvt+skRrng++KKA+EL vLCda+v++i+fss++kl+e++s
  XP_009116122.1  9 KRIENQTNRQVTYSKRRNGLFKKAHELTVLCDARVSIIMFSSSNKLHEFIS 59
                    79***********************************************86 PP
2K-box79.21e-2671169199
           K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                     yq+ s++++++a++e++q+  +kL + +++L+++++++lGe+L++L+++eL++Le+++e+  k +R++K + l +qie+++kk+k++q+++k+L 
  XP_009116122.1  71 YQTVSDVDVWSAHYERMQETKRKLLETNRKLRTQIKQRLGECLDELDIQELRSLEEEMENTFKLVRERKFKSLGNQIETTKKKNKSQQDIQKNLI 165
                     78899999**************************************************************************************9 PP

           K-box  96 kkle 99 
                     ++le
  XP_009116122.1 166 HELE 169
                     9875 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
CDDcd002653.37E-40280No hitNo description
PRINTSPR004048.0E-29323IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.27E-36394IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003191.9E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-293859IPR002100Transcription factor, MADS-box
PfamPF014861.2E-1582168IPR002487Transcription factor, K-box
PROSITE profilePS5129713.84684174IPR002487Transcription 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: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: 232 aa     Download sequence    Send to blast
MARGKIQIKR IENQTNRQVT YSKRRNGLFK KAHELTVLCD ARVSIIMFSS SNKLHEFISP  60
NTTTKEIIDL YQTVSDVDVW SAHYERMQET KRKLLETNRK LRTQIKQRLG ECLDELDIQE  120
LRSLEEEMEN TFKLVRERKF KSLGNQIETT KKKNKSQQDI QKNLIHELEL RAEDPHYGLV  180
DNGGDYDSVL GYQIEGSRAY ALRYHQNHHH HYPNHALHAP SASDIITFHL LE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A2e-17161161MEF2 CHIMERA
6byy_B2e-17161161MEF2 CHIMERA
6byy_C2e-17161161MEF2 CHIMERA
6byy_D2e-17161161MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.6470.0bud| flower
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in petals and stamens.
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00077ChIP-seqTransfer from AT3G54340Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009116122.1
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ3727190.0DQ372719.1 Brassica napus APETALA3-3 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116122.11e-173PREDICTED: floral homeotic protein APETALA 3
RefseqXP_013710394.11e-173floral homeotic protein APETALA 3 isoform X1
SwissprotP356321e-167AP3_ARATH; Floral homeotic protein APETALA 3
TrEMBLA0A397Y8W41e-172A0A397Y8W4_BRACM; Uncharacterized protein
TrEMBLM4CS751e-172M4CS75_BRARP; Uncharacterized protein
TrEMBLQ963571e-172Q96357_BRAOL; Homeotic protein boi1AP3
STRINGBra007067.1-P1e-173(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-152MIKC_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]