PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G06070.1
Common NameK16F4.3, RAB, RBE
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 226aa    MW: 25337.6 Da    PI: 7.8286
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G06070.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.31.3e-055577123
                 EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                 y+C+ Cg+ F++   L  H+++H
  AT5G06070.1 55 YSCSFCGREFKSAQALGGHMNVH 77
                 99*******************99 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.1E-65281No hitNo description
Gene3DG3DSA:3.30.160.602.3E-45379IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.00175577IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.1545582IPR007087Zinc finger, C2H2
PfamPF139123.4E-65578IPR007087Zinc finger, C2H2
PROSITE patternPS0002805777IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009409Biological Processresponse to cold
GO:0009934Biological Processregulation of meristem structural organization
GO:0030154Biological Processcell differentiation
GO:0048441Biological Processpetal development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008270Molecular Functionzinc ion binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000021anatomypetal primordium
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020022anatomyinner integument
PO:0020023anatomyouter integument
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 226 aa     Download sequence    Send to blast
MMDRGECLMS MKLRPMVTRP SSDGTLFWPF REERAFASAE EYGGGGGCMW PPRSYSCSFC  60
GREFKSAQAL GGHMNVHRRD RARLKQQSLS PSSTDQATPP ECDRQQQVLD VGSKVLVQEE  120
TRKPNGTKRE ISDVCNNNVL ESSMKRYEHD NGEVKTDLSV GLLSTEFDPR KKQLINGSSS  180
SWKRAKTDVS RFPMMLGLVI GISEINGHHE ELDLELRLGA DPPKVN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2l1o_A2e-125077229Transcriptional regulator SUPERMAN
1njq_A2e-125077229superman protein
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.329060.0flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453576920.0
Genevisible250708_at0.0
Expression AtlasAT5G06070-
AtGenExpressAT5G06070-
ATTED-IIAT5G06070-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Not expressed in the inflorescence meristem or in the flowers at stages 1 and 2. First expressed in the precursor cells of petal primordia in stage 3 flowers and in the developing petal primordia up to stage 6. Not expressed at later stages. {ECO:0000269|PubMed:14681191}.
UniprotTISSUE SPECIFICITY: Strongly expressed in inflorescences and flowers, and weakly in siliques, seedlings and roots. In flowers, it is expressed in petal primordia and their precursor cells. Also expressed in the lateral root caps and the basal cells of lateral roots. {ECO:0000269|PubMed:14681191}.
Functional Description ? help Back to Top
Source Description
TAIRIsolated as a mutation defective in petal development with specific effects on adaxial petals which are filamentous or absent. Encodes a Superman (SUP) like protein with zinc finger motifs. Transcript is detected in petal primordia and protein is localized to the nucleus.
UniProtProbable transcriptional regulator essential for petal development. Required for the early development of the organ primordia of the second whorl. Acts downstream of AP1 and PTL. {ECO:0000269|PubMed:14681191}.
Function -- GeneRIF ? help Back to Top
  1. RBE acts to maintain two different types of spatial boundaries in young flowers: boundaries between organ primordia within a whorl and boundaries of homeotic gene expression between whorls.
    [PMID: 16412084]
  2. These results indicate that one role of RBE is to fine-tune miR164 expression to regulate the CUC1 and CUC2 effector genes, which, in turn, regulate developmental events required for sepal and petal organogenesis.
    [PMID: 22573623]
  3. restriction of expression to the petal precursor cells crucial for flower development
    [PMID: 24366683]
  4. RBE promotes cell division and negatively regulates the expression of TCP5, TCP13, and TCP17 in young petals.
    [PMID: 26073137]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G06070.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source Upstream Regulator (A: Activate/R: Repress)
ATRM AT5G03680 (A)
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT4G18960(R)
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G06070
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB1073710.0AB107371.1 Arabidopsis thaliana RBE mRNA for one finger-type zinc finger protein for RABBIT EARS, complete cds.
GenBankAP0020300.0AP002030.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K16F4.
GenBankAY0888610.0AY088861.1 Arabidopsis thaliana clone 97505 mRNA, complete sequence.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_568161.11e-169putative transcriptional regulator RABBIT EARS
SwissprotQ9LHS91e-171RBE_ARATH; Probable transcriptional regulator RABBIT EARS
TrEMBLQ1LYT21e-169Q1LYT2_ARATH; At5g06070
STRINGAT5G06070.11e-169(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM51282544
Representative plantOGRP5761581
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Takeda S,Matsumoto N,Okada K
    RABBIT EARS, encoding a SUPERMAN-like zinc finger protein, regulates petal development in Arabidopsis thaliana.
    Development, 2004. 131(2): p. 425-34
    [PMID:14681191]
  3. Krizek BA,Lewis MW,Fletcher JC
    RABBIT EARS is a second-whorl repressor of AGAMOUS that maintains spatial boundaries in Arabidopsis flowers.
    Plant J., 2006. 45(3): p. 369-83
    [PMID:16412084]
  4. Haas TJ, et al.
    The Arabidopsis AAA ATPase SKD1 is involved in multivesicular endosome function and interacts with its positive regulator LYST-INTERACTING PROTEIN5.
    Plant Cell, 2007. 19(4): p. 1295-312
    [PMID:17468262]
  5. Gon
    PpRab1, a Rab GTPase from maritime pine is differentially expressed during embryogenesis.
    Mol. Genet. Genomics, 2007. 278(3): p. 273-82
    [PMID:17562081]
  6. Dacks JB,Poon PP,Field MC
    Phylogeny of endocytic components yields insight into the process of nonendosymbiotic organelle evolution.
    Proc. Natl. Acad. Sci. U.S.A., 2008. 105(2): p. 588-93
    [PMID:18182495]
  7. Alvim Kamei CL, et al.
    The PRA1 gene family in Arabidopsis.
    Plant Physiol., 2008. 147(4): p. 1735-49
    [PMID:18583532]
  8. Irish VF
    The flowering of Arabidopsis flower development.
    Plant J., 2010. 61(6): p. 1014-28
    [PMID:20409275]
  9. Heo JB,Yi YB,Bahk JD
    Rice GDP dissociation inhibitor 3 inhibits OsMAPK2 activity through physical interaction.
    Biochem. Biophys. Res. Commun., 2011. 414(4): p. 814-9
    [PMID:22020099]
  10. Huang T,L
    RBE controls microRNA164 expression to effect floral organogenesis.
    Development, 2012. 139(12): p. 2161-9
    [PMID:22573623]
  11. Lampugnani ER,Kilinc A,Smyth DR
    Auxin controls petal initiation in Arabidopsis.
    Development, 2013. 140(1): p. 185-94
    [PMID:23175631]
  12. Takeda S,Noguchi M,Hamamura Y,Higashiyama T
    Spatial distribution of the RABBIT EARS protein and effects of its ectopic expression in Arabidopsis thaliana flowers.
    Planta, 2014. 239(3): p. 707-15
    [PMID:24366683]
  13. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]
  14. Huang T,Irish VF
    Temporal Control of Plant Organ Growth by TCP Transcription Factors.
    Curr. Biol., 2015. 25(13): p. 1765-70
    [PMID:26073137]
  15. Lång V,Palva ET
    The expression of a rab-related gene, rab 18, is induced by abscisic acid during the cold acclimation process of Arabidopsis thaliana (L.) Heynh.
    Plant Mol. Biol., 1993. 21(3): p. 581-2
    [PMID:8443352]