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 ORGLA01G0080600.1
Organism
Oryza glaberrima
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: 494aa    MW: 51355.1 Da    PI: 8.7896
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA01G0080600.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.74.6e-066082123
                       EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                       ++C++Cgk F r  nL+ H r H
  ORGLA01G0080600.1 60 FVCEICGKGFQRDQNLQLHRRGH 82
                       89*******************88 PP
2zf-C2H212.80.00036136158123
                        EEETTTTEEESSHHHHHHHHHHT CS
            zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                        +kC +C+k++  +s+ k H +t+
  ORGLA01G0080600.1 136 WKCDKCSKRYAVQSDWKAHSKTC 158
                        58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.24E-75982No hitNo description
PROSITE profilePS5015711.6146082IPR007087Zinc finger, C2H2
SMARTSM003550.0126082IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.4E-56082IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806282IPR007087Zinc finger, C2H2
SMARTSM00355260101131IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.4E-4124157IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.24E-7131156No hitNo description
SMARTSM00355140136156IPR015880Zinc 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: 494 aa     Download sequence    Send to blast
MATSEAAAIS NPFAPLTNHQ QEHPPPPPPA KKKRNLPGTP DPEAEVIALS PRTLMATNRF  60
VCEICGKGFQ RDQNLQLHRR GHNLPWKLRQ RSGKEPRKRV YVCPEKSCVH HNPSRALGDL  120
TGIKKHFCRK HGEKKWKCDK CSKRYAVQSD WKAHSKTCGT REYRCDCGTL FSRRDSFITH  180
RAFCDALAEE TARLNAASGA AAAAAAATAT SLCGQSYLFA GSGGPGMAGM RPNMMMPPAA  240
AAAGGQLRAG QMLGPAEGGV GGDLCDGGVA RHGGLSLWGG EALPSMGHIG VLASGGAATV  300
PPQLYVDLFA PSSGAPPPQF DAAQLSWLYG NGKLSSSNAS ELTSATAAAK EAESVPSVFS  360
NQQHAKPAAP TDMSATALLQ KAAQIGAVTS TAAMPLVSPF EPTKPGGATA SPADECGKFD  420
GAALFAGASH HNANLGGAMS ELTAAAGNVP YDVLSAVRHH AGLKDAGGVG REETRDFLGV  480
GVQALCSSSI HGWI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-35132199370Zinc finger protein JACKDAW
5b3h_F1e-35132199370Zinc 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
PlantRegMapORGLA01G0080600.1
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
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-133IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLI1NLR60.0I1NLR6_ORYGL; Uncharacterized protein
STRINGORGLA01G0080600.10.0(Oryza glaberrima)
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-115C2H2 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]