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 XP_013589949.1
Organism
Brassica oleracea
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: 375aa    MW: 42796.9 Da    PI: 7.2192
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013589949.1genomeNCBIView 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
  XP_013589949.1 21 YLCQYCGISRSKKYLITSHIESH 43
                    56*******************96 PP
2zf-C2H220.71.1e-066890123
                    EEETTTTEEESSHHHHHHHHHHT CS
         zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                    ++C+ Cg  F+ + +Lk+H+++H
  XP_013589949.1 68 HTCNECGAEFKKPAHLKQHMQSH 90
                    79*******************99 PP
3zf-C2H217.98.6e-0696120123
                     EEET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                     ++C   dC+ s++rk++L+rH+ tH
  XP_013589949.1  96 FTCYvdDCTASYRRKDHLNRHLLTH 120
                     899999*****************99 PP
4zf-C2H2201.8e-06178201223
                     EET..TTTEEESSHHHHHHHHHHT CS
         zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                     +C+   Cgk F+ +s+L++H  +H
  XP_013589949.1 178 VCKevGCGKAFKYPSQLQKHEDSH 201
                     79999***************9888 PP
5zf-C2H220.31.4e-06268293123
                     EEET..TTTEEESSHHHHHHHHHH.T CS
         zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                     +kC+   C+ +Fs +snL++H++  H
  XP_013589949.1 268 FKCEveGCSSTFSKPSNLQKHLKAvH 293
                     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
SMARTSM003559.7E-46890IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.8E-56887IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015714.0666895IPR007087Zinc finger, C2H2
PROSITE patternPS0002807090IPR007087Zinc finger, C2H2
SuperFamilySSF576671.04E-1081122No hitNo description
Gene3DG3DSA:3.30.160.601.3E-1288122IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0796120IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.70296125IPR007087Zinc finger, C2H2
PROSITE patternPS00028098120IPR007087Zinc finger, C2H2
SuperFamilySSF576673.13E-5123151No hitNo description
SMARTSM003551.2125150IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.556125155IPR007087Zinc finger, C2H2
PROSITE patternPS000280127150IPR007087Zinc finger, C2H2
SuperFamilySSF576673.21E-5172202No hitNo description
Gene3DG3DSA:3.30.160.601.8E-6172201IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0055177201IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.471177206IPR007087Zinc finger, C2H2
PROSITE patternPS000280179201IPR007087Zinc finger, C2H2
SMARTSM003550.52209234IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280211234IPR007087Zinc finger, C2H2
SMARTSM0035525237258IPR015880Zinc finger, C2H2-like
SuperFamilySSF576679.7E-9248303No hitNo description
PROSITE profilePS5015712.84268298IPR007087Zinc finger, C2H2
SMARTSM003553.6E-4268293IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.607.8E-8268293IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280270293IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.5E-5294320IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003554.9299325IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280301325IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 375 aa     Download sequence    Send to blast
MSEEGANVDV NPTKTKDIRN YLCQYCGISR SKKYLITSHI ESHHKMEVEE ERNEEACEDE  60
EEEISSKHTC NECGAEFKKP AHLKQHMQSH SLERPFTCYV DDCTASYRRK DHLNRHLLTH  120
KGKLFKCPVE NCKSEFSIHG NISKHVKKFH TDGDSNKDDT GSGDSQPSEC SSGEKKLVCK  180
EVGCGKAFKY PSQLQKHEDS HVKLDSVEAF CSEIGCMKYF TNEECLKAHI RSSHQHVNCE  240
ICGSKHLKKN IKRHLRTHDE DSSSPGEFKC EVEGCSSTFS KPSNLQKHLK AVHEDIRPFV  300
CGFPGCGMRF AYKHVRNNHE NSGSHVYTCG DFVEADEDFT SRPRGGLKRK QVTAEMLVRK  360
RVMPPQFDSE EQETC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5v3m_C2e-161932832309Zinc finger protein 568
5wjq_D2e-16193287284Zinc finger protein 568
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013589949.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013589949.10.0PREDICTED: transcription factor IIIA-like
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A0D3CX700.0A0A0D3CX70_BRAOL; Uncharacterized 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