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 OBART01G08960.1
Organism
Oryza barthii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family C2H2
Protein Properties Length: 459aa    MW: 47590.9 Da    PI: 8.3951
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OBART01G08960.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.94.2e-062547123
                     EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                     ++C++Cgk F r  nL+ H r H
  OBART01G08960.1 25 FVCEICGKGFQRDQNLQLHRRGH 47
                     89*******************88 PP
2zf-C2H212.90.00033101123123
                      EEETTTTEEESSHHHHHHHHHHT CS
          zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                      +kC +C+k++  +s+ k H +t+
  OBART01G08960.1 101 WKCDKCSKRYAVQSDWKAHSKTC 123
                      58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.57E-72447No hitNo description
SMARTSM003550.0122547IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.3E-52547IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.6142547IPR007087Zinc finger, C2H2
PROSITE patternPS0002802747IPR007087Zinc finger, C2H2
SMARTSM003552106696IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.2E-489122IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.57E-796121No hitNo description
SMARTSM00355140101121IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 459 aa     Download sequence    Send to blast
MSVGADPEAE VIALSPRTLM ATNRFVCEIC GKGFQRDQNL QLHRRGHNLP WKLRQRSGKE  60
PRKRVYVCPE PTCVHHDPTR ALGDLTGIKK HFCRKHGEKK WKCDKCSKRY AVQSDWKAHS  120
KTCGTREYRC DCGTLFSRRD SFITHRAFCD ALAEETARLN AASGAAAAAA AATATSLCGQ  180
SYLFAGSGGP GMAGMRPNMM MPPAAAAAGG QLRAGQMLGP AEGGVGGDLC DGGVARHGGL  240
SLWGGEALPS MGHIGVLASG GAATVPPQLY VDLFAPSSGA PPPQFDAAQL SWLYGNGKLS  300
SSNASELTSA TAAAKEAESV PSVFSNQQHA KPAAPTDMSA TALLQKAAQI GAVTSTAAMP  360
LVSPFEPTKP GGATASPADE CGKFDGAALF AAASHHNANL GGAMSELTAA AGNVPYDVLS  420
AVRHHAGLKD AGGVGREETR DFLGVGVQAL CSSSIHGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-3597164370Zinc finger protein JACKDAW
5b3h_F1e-3597164370Zinc 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}.
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
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0032010.0AP003201.3 Oryza sativa Japonica Group genomic DNA, chromosome 1, BAC clone:B1066G12.
GenBankAP0149570.0AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015634949.10.0zinc finger protein NUTCRACKER
SwissprotQ9ZWA61e-123IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A0D3ELM30.0A0A0D3ELM3_9ORYZ; Uncharacterized protein
STRINGOBART01G08960.10.0(Oryza barthii)
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
AT1G03840.11e-107C2H2 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]