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 GSBRNA2T00030868001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family C2H2
Protein Properties Length: 120aa    MW: 14099.4 Da    PI: 10.3411
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00030868001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.61.1e-05628123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         + C  C+k F r  nL+ H r H
  GSBRNA2T00030868001  6 FICDVCKKGFQREQNLQLHRRGH 28
                         89*******************88 PP
2zf-C2H215.93.7e-0582104123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  GSBRNA2T00030868001  82 WKCEKCSKRYAVQSDWKAHSKTC 104
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576672.8E-8528No hitNo description
Gene3DG3DSA:3.30.160.608.3E-6528IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF139121.4E-5528IPR007087Zinc finger, C2H2
PROSITE profilePS5015710.616628IPR007087Zinc finger, C2H2
SMARTSM003550.014628IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280828IPR007087Zinc finger, C2H2
SMARTSM003551104777IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.8E-670103IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.8E-877102No hitNo description
SMARTSM0035513082102IPR015880Zinc 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: 120 aa     Download sequence    Send to blast
MATNRFICDV CKKGFQREQN LQLHRRGHNL PWKLKQKSTK DVKRKVYLCP EPTCVHHDPS  60
RALGDLTGIK KHYYRKHGEK KWKCEKCSKR YAVQSDWKAH SKTCGTKEYR CDCGTIFSR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-2278119344Zinc finger protein JACKDAW
5b3h_F8e-2278119344Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). 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). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00030868001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM2229241e-167HM222924.1 Thellungiella parvula phosphatase, cyclin J18, clathrin assembly protein-related protein, BPC1, SGR5/ATIDD15, leucine-rich receptor kinase, endomemebrane protein 70, salt overly sensitive 1, glutamate decarboxylae 4, oligopeptide transport protein, peptide transporter, and NADH-ubiquinone oxidoreductase B18 genes, complete cds; and unknown genes.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013691845.11e-89protein indeterminate-domain 4, chloroplastic-like isoform X2
RefseqXP_013691857.11e-89protein indeterminate-domain 4, chloroplastic-like isoform X2
RefseqXP_022572232.11e-89protein indeterminate-domain 4, chloroplastic-like isoform X2
SwissprotQ8GYC12e-89IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A3P6B5731e-87A0A3P6B573_BRACM; Uncharacterized protein
TrEMBLE5F7112e-87E5F711_9BRAS; Uncharacterized protein
STRINGAT2G02080.17e-88(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.16e-92indeterminate(ID)-domain 4
Publications ? help Back to Top
  1. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]