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 GSBRNA2T00001824001
Common NameGSBRNA2T00001824001
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: 528aa    MW: 56673.7 Da    PI: 10.0545
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00001824001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.32.7e-0584106123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          + C+ C+k F r  nL+ H r H
  GSBRNA2T00001824001  84 FICEVCNKGFQREQNLQLHRRGH 106
                          89*******************88 PP
2zf-C2H213.30.00025160182123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          +kC++C+k++  +s+ k H +t+
  GSBRNA2T00001824001 160 WKCEKCSKRYAVQSDWKAHSKTC 182
                          58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.605.8E-683106IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.15E-783106No hitNo description
SMARTSM003550.005284106IPR015880Zinc finger, C2H2-like
PfamPF121712.5E-584106IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.9984106IPR007087Zinc finger, C2H2
PROSITE patternPS00028086106IPR007087Zinc finger, C2H2
SMARTSM00355110125155IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.3E-5148181IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.15E-7155180No hitNo description
SMARTSM00355130160180IPR015880Zinc 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: 528 aa     Download sequence    Send to blast
MAASSSSAAS FFGVRQDEQS HLLPPNSSAA VPPPPPPPHH QPPQPQQPLE APPQKKKRNQ  60
PRTPNSDAEV IALSPKTLMA TNRFICEVCN KGFQREQNLQ LHRRGHNLPW KLKQKSTKEV  120
KRKVYLCPEP SCVHHDPSRA LGDLTGIKKH YYRKHGEKKW KCEKCSKRYA VQSDWKAHSK  180
TCGTKEYRCD CGTLFSRRDS FITHRAFCDA LAQESARHPT SLTSLPSHHF PYGQTTNNSN  240
NNTPSMILGL PHIGNPQNLD HQSGDVLRLG SGGGGFLAAS NNIKPSPMNF QQSLMQFSND  300
NHNSPSSNLF NLSFLSGNNG IASGTSNPNA AAVPSANHML SNHFGAGRIN SGAVPSLFSS  360
SMQNPNSASH MSATALLQKA AQMGSSTSSS NNNNTNNASS ILRSFGSGMY GENESNLHDL  420
MNSFSNPGAT GNSANGVDSQ FGTYGGVNKG LSADKQNMTR DFLGVGQIVR SMSGSAGFQQ  480
QQQQHGNGGR ERVGSSSDSA DRNSMNVNPG GGGSTSSPPY GIHHASF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-34156217364Zinc finger protein JACKDAW
5b3h_F4e-34156217364Zinc 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
PlantRegMapGSBRNA2T00001824001
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.
GenBankAY0813140.0AY081314.1 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_009101276.10.0PREDICTED: LOW QUALITY PROTEIN: protein indeterminate-domain 5, chloroplastic
SwissprotQ9ZUL30.0IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A078FSW90.0A0A078FSW9_BRANA; BnaA06g34340D protein
STRINGBra024834.1-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
AT2G02070.11e-150indeterminate(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]