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 GSBRNA2T00090135001
Common NameGSBRNA2T00090135001
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: 569aa    MW: 61200.3 Da    PI: 9.5387
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00090135001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.22.9e-0582104123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C+ C+k F r  nL+ H r H
  GSBRNA2T00090135001  82 FICEVCNKGFQREQNLQLHRRGH 104
                          89*******************88 PP
2zf-C2H213.20.00027158180123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  GSBRNA2T00090135001 158 WKCEKCSKRYAVQSDWKAHSKTC 180
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.606.3E-681104IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.05E-781104No hitNo description
PfamPF121712.8E-582104IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9982104IPR007087Zinc finger, C2H2
SMARTSM003550.005282104IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028084104IPR007087Zinc finger, C2H2
SMARTSM00355110123153IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.6E-5146179IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.05E-7153178No 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: 569 aa     Download sequence    Send to blast
MAASSSSNAS FFGVREEDQT HLLPPNPSAA VAPPPPHHQP LQSQQPLEAP PQKKKRNQPR  60
TPNSDAEVIA LSPKTLMATN RFICEVCNKG FQREQNLQLH RRGHNLPWKL KQKSTKEVKR  120
KVYLCPEPTC VHHDPSRALG DLTGIKKHYY RKHGEKKWKC EKCSKRYAVQ SDWKAHSKTC  180
GTKEYRCDCG TLFSRRDSFI THRAFCDALA QESARHPTSL TSLPSHHFPY GQNTNSNNNS  240
SSMMLGLSHT GAPQHLDYHS GDVLRLGSGE GVGGGAASRS SSDLIAANVS GYFMQDQNPS  300
FHDQQQGFLA ASNNIKPSPM NFQQSLMQFS HDSHNSPSSN LFNLSFLSGN NGAASATSNQ  360
NAAAVSSGST GLFPNNLISS ADRTSSGAVP SLFSSSMQNP ISTPQMSATA LLQKAAQMGS  420
TSSSSNNNNN NGSSNNNNNN ASSILRNFGS GMYGENESNL YDLMNSFSNP DPTGNNVNGV  480
HSPFGSYGGV NKGLNADKQS MTRDFLGVGQ IVRSMSGSGG VQQQQQQHGN SRERVGSSSD  540
SVDRNSTTLN PGGGPATSPP YGIHHASF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C9e-34154215364Zinc finger protein JACKDAW
5b3h_F9e-34154215364Zinc 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
PlantRegMapGSBRNA2T00090135001
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_013697313.10.0protein indeterminate-domain 5, chloroplastic-like
SwissprotQ9ZUL30.0IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A078FRN50.0A0A078FRN5_BRANA; BnaC02g34300D protein
STRINGBra026617.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.10.0indeterminate(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]