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 GSBRNA2T00137272001
Common NameGSBRNA2T00137272001
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: 431aa    MW: 49290.8 Da    PI: 8.7063
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00137272001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.90.000683557123
                         EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                         y C++Cg s s k++ ++Hi++H
  GSBRNA2T00137272001 35 YLCQYCGISRSKKYLITSHINSH 57
                         56********************6 PP
2zf-C2H211.90.0006882104123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          y C++Cg s s k++ ++Hi++H
  GSBRNA2T00137272001  82 YLCQYCGISRSKKYLITSHINSH 104
                          56********************6 PP
3zf-C2H2187.9e-06129151123
                          EEETTTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                          ++C+ Cg  F+ + +Lk+H+++H
  GSBRNA2T00137272001 129 HTCQACGAEFKKPAHLKQHMQSH 151
                          79*******************99 PP
4zf-C2H216.23.1e-05157181123
                          EEET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                          + C   dC+ s++rk++L+rH+ tH
  GSBRNA2T00137272001 157 FACYvnDCTSSYRRKDHLNRHLLTH 181
                          568888*****************99 PP
5zf-C2H2224.4e-07233256223
                          EET..TTTEEESSHHHHHHHHHHT CS
              zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                          +C+   Cgk F+ +s+L++H+ +H
  GSBRNA2T00137272001 233 VCKekGCGKAFKYPSQLQKHQDSH 256
                          79999****************998 PP
6zf-C2H218.74.6e-06323348123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
              zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                          +kC+   C+ +Fs  snL++H++  H
  GSBRNA2T00137272001 323 FKCEveGCSSTFSKASNLQKHLKAvH 348
                          89********************9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355253557IPR015880Zinc finger, C2H2-like
SMARTSM003552582104IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.8E-4128148IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015713.526129156IPR007087Zinc finger, C2H2
SMARTSM003550.0045129151IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280131151IPR007087Zinc finger, C2H2
SuperFamilySSF576672.4E-10138189No hitNo description
Gene3DG3DSA:3.30.160.601.1E-12149183IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.681157186IPR007087Zinc finger, C2H2
SMARTSM003550.35157181IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280159181IPR007087Zinc finger, C2H2
SMARTSM003551.4186211IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.162186216IPR007087Zinc finger, C2H2
PROSITE patternPS000280188211IPR007087Zinc finger, C2H2
SuperFamilySSF576678.65E-6227258No hitNo description
Gene3DG3DSA:3.30.160.604.8E-7227256IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.72232261IPR007087Zinc finger, C2H2
SMARTSM003550.0018232256IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280234256IPR007087Zinc finger, C2H2
SMARTSM003550.24264289IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.1E-4266287IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280266289IPR007087Zinc finger, C2H2
SMARTSM0035522292313IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-7303345IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.93E-9304359No hitNo description
PROSITE profilePS5015712.965323353IPR007087Zinc finger, C2H2
SMARTSM003554.2E-4323348IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280325348IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.7E-5347377IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.5354380IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280356380IPR007087Zinc 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: 431 aa     Download sequence    Send to blast
MQTNPDSRVE NQSEMPEEAA NVDAKPSKPK DIRHYLCQYC GISRSKKYLI TSHINSHHKL  60
TSVWLLLNVD AKPSKPKDIR HYLCQYCGIS RSKKYLITSH INSHHKVEVE MERDEEAWEA  120
DEEDVSGKHT CQACGAEFKK PAHLKQHMQS HSLERPFACY VNDCTSSYRR KDHLNRHLLT  180
HKGKLFKCPV GNCKSEFSVH GNIGRHVKKF HRKDDTANDP HPSECSTGQK KLVCKEKGCG  240
KAFKYPSQLQ KHQDSHVKLD SVEAFCSEPG CMKYFTNEEC LKAHIRSSHQ HINCEICGSK  300
HLKKNIKRHL RTHEEDSSSP GEFKCEVEGC SSTFSKASNL QKHLKAVHED IRPFVCGFSG  360
CAKRFAYKHV RNNHEKSGSH IYTCGDFVEA DEDFTSRPRG GVKRKHVTAE VLIRKRVMPP  420
QFDSQEHETC *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5v3m_C8e-18373838309Zinc finger protein 568
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.45480.0flower| leaf| seed
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
PlantRegMapGSBRNA2T00137272001
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_013691314.10.0transcription factor IIIA-like isoform X1
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0D3APY40.0A0A0D3APY4_BRAOL; Uncharacterized protein
STRINGBo2g075240.10.0(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]