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 Sevir.5G002300.1.p
Organism
Setaria viridis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family C2H2
Protein Properties Length: 436aa    MW: 46259.7 Da    PI: 9.3174
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sevir.5G002300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94e-067395123
                        EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                        ++C++Cgk F r  nL+ H r H
  Sevir.5G002300.1.p 73 FVCEICGKGFQRDQNLQLHRRGH 95
                        89*******************88 PP
2zf-C2H213.70.00019150172123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC +C+k +  +s+ k H +t+
  Sevir.5G002300.1.p 150 WKCDKCSKKYAVQSDWKAHAKTC 172
                         58******************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.3E-77295No hitNo description
PROSITE profilePS5015711.6147395IPR007087Zinc finger, C2H2
SMARTSM003550.0127395IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-57395IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002807595IPR007087Zinc finger, C2H2
SMARTSM00355250115145IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.0E-4138171IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.3E-7145170No hitNo description
SMARTSM00355150150170IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 436 aa     Download sequence    Send to blast
MLEKPPTMAS EATAAIISNP LMAPLPLSHQ QAEQQQQPLP PPAKKKRSLP GTPDPDAEVI  60
ALSPRTLMAT NRFVCEICGK GFQRDQNLQL HRRGHNLPWK LRQRSGKEPP RKRVYVCPET  120
SCVHHNPSRA LGDLTGIKKH FCRKHGEKKW KCDKCSKKYA VQSDWKAHAK TCGTREYRCD  180
CGTLFSRRDS FITHRAFCDA LAEETARLNA AAAPSSYHFA AGSPPGLAAV RPNMVLPAPP  240
HLKLWGGSDT ATLPSMGIIG GVLAGAGAPP PVVPPQLYAE LLPVPGAPSS QQLDAAQLGW  300
LYGGSTGKQL SSSNASDLTT TEAPSVFSGQ HHGNAKPAPP TDMSATALLQ KAAQMGAVQA  360
SGNAMSAAED VFRASSQLQH AANLTGGNVA YDILSAAGLN KDAAVHVGRE ETRDFLGVGV  420
QALCSSSLPL HGWIA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-37146210367Zinc finger protein JACKDAW
5b3h_F3e-37146210367Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSevir.5G002300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1074681e-158AK107468.1 Oryza sativa Japonica Group cDNA clone:002-129-B01, full insert sequence.
GenBankHG6703061e-158HG670306.1 Triticum aestivum chromosome 3B, genomic scaffold, cultivar Chinese Spring.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022682927.10.0zinc finger protein MAGPIE
SwissprotQ9ZWA61e-122IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A368QZL10.0A0A368QZL1_SETIT; Uncharacterized protein
STRINGSi005031m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20238320
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.12e-95C2H2 family protein
Publications ? help Back to Top
  1. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]