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 Araha.4197s0015.1.p
Organism
Arabidopsis halleri
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 TALE
Protein Properties Length: 429aa    MW: 46558.7 Da    PI: 8.7556
Description TALE family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.4197s0015.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Homeobox28.52.5e-092232552254
                          SSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHH CS
             Homeobox  22 nrypsaeereeLAkklgLterqVkvWFqNrRak 54 
                          ++yp+ +++  LAk++gL+ +qV++WF N R +
  Araha.4197s0015.1.p 223 HPYPTDTDKLMLAKQTGLSRNQVSNWFINARVR 255
                          89*****************************87 PP
2BELL113.21.4e-3677145472
                 BELL   4 elqkkkakLlslleeVdkrYkqyveqlqtvissFeavaglgsakpYtslAlkaiSrhFrcLkdaiaeqi 72 
                          ++ kkk+kL+s+l+eV+krYkqy+eqlq+v++sFe+vaglg+a+pY++lAlka+S+hF+cLk+ai++q+
  Araha.4197s0015.1.p  77 DNGKKKSKLISMLDEVYKRYKQYYEQLQAVMGSFECVAGLGHAAPYATLALKALSKHFKCLKNAITDQL 145
                          5789**************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM005744.4E-7016143IPR006563POX domain
PfamPF075265.0E-3521142IPR006563POX domain
PROSITE profilePS5007111.677196259IPR001356Homeobox domain
SMARTSM003891.8E-9199263IPR001356Homeobox domain
CDDcd000867.47E-12199260No hitNo description
SuperFamilySSF466895.56E-17201266IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.9E-27203263IPR009057Homeodomain-like
PfamPF059201.2E-18216255IPR008422Homeobox KN domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010051Biological Processxylem and phloem pattern formation
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010077Biological Processmaintenance of inflorescence meristem identity
GO:0010089Biological Processxylem development
GO:0010154Biological Processfruit development
GO:0010223Biological Processsecondary shoot formation
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048457Biological Processfloral whorl morphogenesis
GO:0048645Biological Processorgan formation
GO:0080006Biological Processinternode patterning
GO:0005634Cellular Componentnucleus
GO:0005829Cellular Componentcytosol
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 429 aa     Download sequence    Send to blast
AVTIASRSSG PLGPFTGYAS ILKGSRFLKP AQMLLDEFCN VGRGIYTDKV IDDDDSSLLF  60
DPTVENLCGV SDGGGGDNGK KKSKLISMLD EVYKRYKQYY EQLQAVMGSF ECVAGLGHAA  120
PYATLALKAL SKHFKCLKNA ITDQLQFSHN NKIQQQQCGH PMNSENKTDS LRFGGSDSSR  180
GFCSAGQRHG FPDHHAPVWR PHRGLPERAV SVLRAWLFDH FLHPYPTDTD KLMLAKQTGL  240
SRNQVSNWFI NARVRVWKPM VEEIHMLETR QSQRSSSSSS WRDERSSTTV FPDNNNNPSS  300
SAVQQRANNS PPARRARNDD VHGPNNNSYV NSGSGGGGSA VGFSYGIGSS NVPVMNNNST  360
NGGVSLTLGL HHQIGLPEPF PMTTAQRFGL DGGSGDGGGG GGYEGQNRQF GRDFIGGSNH  420
QFLHDFVG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4xrm_A7e-17205263563Homeobox protein Meis2
4xrm_B7e-17205263563Homeobox protein Meis2
4xrs_A7e-17205262158Homeobox protein Meis1
4xrs_B7e-17205262158Homeobox protein Meis1
5bng_A6e-17205263159Homeobox protein Meis2
5bng_B6e-17205263159Homeobox protein Meis2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that is involved in the preservation of the spiral phyllotactic arrangement leading to a regular pattern of organ initiation. Required for maintenance of stem cell fate in the shoot apical meristem, and is essential for specifying floral primordia and establishing early internode patterning events during inflorescence development. Acts as transcription repressor of AG expression in floral and inflorescence meristems. Is also responsive of the nuclear import of SHOOT MERISTEMLESS (STM). In the fruit, plays a central role in patterning by negatively regulating SHP expression in order to prevent replum cells from adopting a valve margin cell fate. {ECO:0000269|PubMed:12874117, ECO:0000269|PubMed:12897247, ECO:0000269|PubMed:13678595, ECO:0000269|PubMed:15019989, ECO:0000269|PubMed:15120075, ECO:0000269|PubMed:15155890, ECO:0000269|PubMed:16741748}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.4197s0015.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5194910.0AJ519491.1 Arabidopsis thaliana mRNA for homeodomain protein vaamana (vaamana gene).
GenBankAY3283140.0AY328314.1 Arabidopsis thaliana bellringer homeodomain protein mRNA, complete cds.
GenBankBT0007790.0BT000779.1 Arabidopsis thaliana clone RAFL07-07-D11 (R10638) putative homeodomain protein (At5g02030) mRNA, complete cds.
GenBankBT0205370.0BT020537.1 Arabidopsis thaliana At5g02030 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023637653.10.0BEL1-like homeodomain protein 9
SwissprotQ9LZM80.0BLH9_ARATH; BEL1-like homeodomain protein 9
TrEMBLR0FE520.0R0FE52_9BRAS; Uncharacterized protein
STRINGCagra.2637s0010.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM56882746
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G02030.10.0TALE family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Khan M, et al.
    Repression of Lateral Organ Boundary Genes by PENNYWISE and POUND-FOOLISH Is Essential for Meristem Maintenance and Flowering in Arabidopsis.
    Plant Physiol., 2015. 169(3): p. 2166-86
    [PMID:26417006]
  4. Andrés F, et al.
    Floral Induction in Arabidopsis by FLOWERING LOCUS T Requires Direct Repression of BLADE-ON-PETIOLE Genes by the Homeodomain Protein PENNYWISE.
    Plant Physiol., 2015. 169(3): p. 2187-99
    [PMID:26417007]
  5. Bencivenga S,Serrano-Mislata A,Bush M,Fox S,Sablowski R
    Control of Oriented Tissue Growth through Repression of Organ Boundary Genes Promotes Stem Morphogenesis.
    Dev. Cell, 2016. 39(2): p. 198-208
    [PMID:27666746]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]