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 GSBRNA2T00117773001
Common NameGSBRNA2T00117773001
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: 215aa    MW: 24446 Da    PI: 10.1346
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00117773001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.98.5e-0682104123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C+ C+k F r  nL+ H r H
  GSBRNA2T00117773001  82 FICEVCNKGFQREQNLQLHRRGH 104
                          89*******************88 PP
2zf-C2H214.97.9e-05158180123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  GSBRNA2T00117773001 158 WKCEKCSKRYAVQSDWKAHSKTC 180
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576677.45E-881104No hitNo description
Gene3DG3DSA:3.30.160.601.8E-681104IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.9982104IPR007087Zinc finger, C2H2
SMARTSM003550.005282104IPR015880Zinc finger, C2H2-like
PfamPF121718.1E-682104IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS00028084104IPR007087Zinc finger, C2H2
SMARTSM00355110123153IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.1E-5146179IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576677.45E-8153178No hitNo description
SMARTSM00355130158178IPR015880Zinc 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: 215 aa     Download sequence    Send to blast
MAASSSSAAS FFGVQQDDQS HILPPNSSAT APPLLTHHQP PQSQQPLDAP PQKKKRNQPR  60
TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC  180
GTKEYRCDCG TLFSRFTFCF ASKSSMLLLL YFEQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-22154195344Zinc finger protein JACKDAW
5b3h_F2e-22154195344Zinc finger protein JACKDAW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Highly expressed in leaf tissues. {ECO:0000305|PubMed:22898356}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00117773001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6214950.0AJ621495.1 Arabidopsis thaliana mRNA for ID1-like zinc finger protein 2 (idz2 gene).
GenBankAY0561740.0AY056174.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
GenBankBT0012150.0BT001215.1 Arabidopsis thaliana putative C2H2-type zinc finger protein (At2g02070) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_022565070.11e-147protein indeterminate-domain 5, chloroplastic-like
SwissprotQ9ZUL31e-107IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A397Y3X11e-144A0A397Y3X1_BRACM; Uncharacterized protein
TrEMBLM4FIP51e-144M4FIP5_BRARP; Uncharacterized protein
STRINGBra040974.1-P1e-145(Brassica rapa)
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
AT2G02070.11e-109indeterminate(ID)-domain 5
Publications ? help Back to Top
  1. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]