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 Carubv10018833m
Common NameCARUB_v10018833mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MIKC_MADS
Protein Properties Length: 233aa    MW: 27369.9 Da    PI: 8.939
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10018833mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.26e-30959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien++nrqvt+skRrng++KKA+EL vLCda+v++i+fss++kl+ey+s
  Carubv10018833m  9 KRIENQTNRQVTYSKRRNGLFKKAHELTVLCDARVSIIMFSSSNKLHEYIS 59
                     79***********************************************86 PP
2K-box78.31.9e-2671169199
            K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaL 94 
                      yq+ s+++++++++e++q+  +kL + ++nL+++++++lGe+Le+L++ eL++Le+++e+  k +R++K + l +qie+++kk+k++q+++k+L
  Carubv10018833m  71 YQSISDVDVWSTQYERMQETKRKLLETNRNLRTQIKQRLGECLEELDYHELRRLEDEMENTFKLVRERKIKSLGNQIETTKKKNKSQQDIQKNL 164
                      78899999************************************************************************************** PP

            K-box  95 rkkle 99 
                       ++le
  Carubv10018833m 165 IHELE 169
                      99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.142161IPR002100Transcription factor, MADS-box
SMARTSM004321.0E-40160IPR002100Transcription factor, MADS-box
CDDcd002656.21E-40280No hitNo description
PRINTSPR004046.1E-29323IPR002100Transcription factor, MADS-box
SuperFamilySSF554554.06E-36394IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003192.4E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004046.1E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004046.1E-293859IPR002100Transcription factor, MADS-box
PfamPF014862.5E-1482168IPR002487Transcription factor, K-box
PROSITE profilePS5129713.60784174IPR002487Transcription 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: 233 aa     Download sequence    Send to blast
MARGKIQIKR IENQTNRQVT YSKRRNGLFK KAHELTVLCD ARVSIIMFSS SNKLHEYISP  60
NTTTKEIVDL YQSISDVDVW STQYERMQET KRKLLETNRN LRTQIKQRLG ECLEELDYHE  120
LRRLEDEMEN TFKLVRERKI KSLGNQIETT KKKNKSQQDI QKNLIHELEL RAEDPHYGLV  180
DNGGDYDSVL GYQIEGSRAY ALRFHQNHHH HYPNHALHAP SASDIITFHL LE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A4e-18161161MEF2 CHIMERA
6byy_B4e-18161161MEF2 CHIMERA
6byy_C4e-18161161MEF2 CHIMERA
6byy_D4e-18161161MEF2 CHIMERA
6bz1_A5e-18161161MEF2 CHIMERA
6bz1_B5e-18161161MEF2 CHIMERA
6bz1_C5e-18161161MEF2 CHIMERA
6bz1_D5e-18161161MEF2 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}.
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
PlantRegMapCarubv10018833m
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
GenBankEU5517640.0EU551764.1 Capsella bursa-pastoris APETALA3-like protein (AP3a) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006292594.11e-173floral homeotic protein APETALA 3
SwissprotP356321e-168AP3_ARATH; Floral homeotic protein APETALA 3
TrEMBLR0FRZ91e-172R0FRZ9_9BRAS; Uncharacterized protein
STRINGCagra.0562s0025.1.p1e-173(Capsella grandiflora)
STRINGXP_006292594.11e-173(Capsella rubella)
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-154MIKC_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]