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 GSBRNA2T00062423001
Common NameGSBRNA2T00062423001
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: 367aa    MW: 41853.1 Da    PI: 7.7284
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00062423001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.10.00122143123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y C++Cg s s k++ ++Hi +H
  GSBRNA2T00062423001 21 YLCQYCGISRSKKYLITSHIESH 43
                         56*******************96 PP
2zf-C2H220.71.1e-066890123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         ++C+ Cg  F+ + +Lk+H+++H
  GSBRNA2T00062423001 68 HTCNECGAEFKKPAHLKQHMQSH 90
                         79*******************99 PP
3zf-C2H217.31.3e-0596120123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + C   dC+ s++rk++L+rH+ tH
  GSBRNA2T00062423001  96 FACYvdDCTASYRRKDHLNRHLLTH 120
                          678888*****************99 PP
4zf-C2H220.11.7e-06169192223
                          EET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                          +C+   Cgk F+ +s+L++H  +H
  GSBRNA2T00062423001 169 VCKevGCGKAFKYPSQLQKHEDSH 192
                          79999***************9888 PP
5zf-C2H220.41.4e-06259284123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                          +kC+   C+ +Fs +snL++H++  H
  GSBRNA2T00062423001 259 FKCEveGCSSTFSKPSNLQKHLKAvH 284
                          89********************9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355262143IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.7E-56887IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015714.0666895IPR007087Zinc finger, C2H2
SMARTSM003559.7E-46890IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807090IPR007087Zinc finger, C2H2
SuperFamilySSF576679.07E-1181122No hitNo description
Gene3DG3DSA:3.30.160.607.3E-1388122IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.6696125IPR007087Zinc finger, C2H2
SMARTSM003550.1496120IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028098120IPR007087Zinc finger, C2H2
SuperFamilySSF576678.64E-6106161No hitNo description
PROSITE profilePS501579.411125155IPR007087Zinc finger, C2H2
SMARTSM003551.2125150IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280127150IPR007087Zinc finger, C2H2
SuperFamilySSF576677.14E-5164194No hitNo description
Gene3DG3DSA:3.30.160.609.0E-6166192IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.533168197IPR007087Zinc finger, C2H2
SMARTSM003550.0055168192IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280170192IPR007087Zinc finger, C2H2
SMARTSM003550.52200225IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280202225IPR007087Zinc finger, C2H2
SMARTSM0035525228249IPR015880Zinc finger, C2H2-like
SuperFamilySSF576671.62E-8239294No hitNo description
PROSITE profilePS5015712.84259289IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.6E-8259284IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003553.6E-4259284IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280261284IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.2E-5285311IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003554.9290316IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280292316IPR007087Zinc finger, C2H2
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: 367 aa     Download sequence    Send to blast
MSEEGANVDV NPTKTKDIRN YLCQYCGISR SKKYLITSHI ESHHKMEVEE ERNEEACEDE  60
EEEISSKHTC NECGAEFKKP AHLKQHMQSH SLERPFACYV DDCTASYRRK DHLNRHLLTH  120
KGKLFKCPVE NCKSEFSIHG NISKHVKKFH TDGDNSQPSE CSSGQKKLVC KEVGCGKAFK  180
YPSQLQKHED SHVKLNSVGA FCSEIGCMKY FTNEECLKAH IRSSHQHVNC EICGSKHLKK  240
NIKRHLRTHD EDSSSPGEFK CEVEGCSSTF SKPSNLQKHL KAVHEDIRPF VCGFPGCGMR  300
FAYKHVRNNH ENSGSHIYTC GDFVEADEDF TSRPRGGLKR KHVTAEMLVR KRVMPPQFDS  360
EEQETC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5v3m_C3e-161931932309Zinc finger protein 568
5wjq_D2e-16193197284Zinc finger protein 568
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.94840.0leaf| seed| vegetative meristem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00062423001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013698439.10.0transcription factor IIIA-like isoform X1
RefseqXP_022558062.10.0transcription factor IIIA-like isoform X1
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A078HGY50.0A0A078HGY5_BRANA; BnaCnng07660D protein
STRINGBo6g092790.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47142852
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.20.0transcription factor IIIA
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]