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 AT1G72050.2
Common NameF28P5.6, TFIIIA
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family C2H2
Protein Properties Length: 412aa    MW: 46652.9 Da    PI: 7.49
Description transcription factor IIIA
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G72050.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H211.20.00122042123
                 EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                 y C++Cg s s +++ ++Hi++H
  AT1G72050.2 20 YLCQYCGISRSKNYLITKHIQSH 42
                 56********************6 PP
2zf-C2H220.11.7e-066688123
                 EEETTTTEEESSHHHHHHHHHHT CS
      zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                 ++C+ Cg  F+ + +Lk+H+++H
  AT1G72050.2 66 HTCQECGAEFKKPAHLKQHMQSH 88
                 79*******************99 PP
3zf-C2H215.45.5e-0594118123
                  EEET..TTTEEESSHHHHHHHHHHT CS
      zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                  ++C   dC  s++rk++L+rH+ tH
  AT1G72050.2  94 FTCYvdDCAASYRRKDHLNRHLLTH 118
                  789999*****************99 PP
4zf-C2H221.94.6e-07216239223
                  EET..TTTEEESSHHHHHHHHHHT CS
      zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                  +C+   Cgk F+ +s+L++H+ +H
  AT1G72050.2 216 VCKeiGCGKAFKYPSQLQKHQDSH 239
                  69999****************998 PP
5zf-C2H218.94.2e-06306330223
                  EET..TTTEEESSHHHHHHHHHH.T CS
      zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                  kC+   C+ +Fs  snL++H++  H
  AT1G72050.2 306 KCEveGCSSTFSKASNLQKHMKAvH 330
                  79999****************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355222042IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.608.2E-56585IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.8196693IPR007087Zinc finger, C2H2
SMARTSM003550.00156688IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806888IPR007087Zinc finger, C2H2
SuperFamilySSF576671.41E-979120No hitNo description
Gene3DG3DSA:3.30.160.603.7E-1186120IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.9194123IPR007087Zinc finger, C2H2
SMARTSM003550.1194118IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028096118IPR007087Zinc finger, C2H2
SMARTSM003550.89123148IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.723123153IPR007087Zinc finger, C2H2
PROSITE patternPS000280125148IPR007087Zinc finger, C2H2
SuperFamilySSF576672.7E-5210241No hitNo description
Gene3DG3DSA:3.30.160.601.4E-6210239IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0063215239IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.533215244IPR007087Zinc finger, C2H2
PROSITE patternPS000280217239IPR007087Zinc finger, C2H2
SMARTSM003550.95247272IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280249272IPR007087Zinc finger, C2H2
SMARTSM0035522275296IPR015880Zinc finger, C2H2-like
SuperFamilySSF576673.35E-8286340No hitNo description
PROSITE profilePS5015712.258305335IPR007087Zinc finger, C2H2
SMARTSM003555.3E-4305330IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.5E-7306330IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280307330IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.5E-5331357IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003555.7336362IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280338362IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007275Biological Processmulticellular organism development
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0008270Molecular Functionzinc ion binding
GO:0080084Molecular Function5S rDNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000005anatomycultured plant cell
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020094anatomyplant egg cell
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 412 aa     Download sequence    Send to blast
MAEEAKVDVK TSAKKDIRNY LCQYCGISRS KNYLITKHIQ SHHQMELEEE RDDEACEVDE  60
ESSSNHTCQE CGAEFKKPAH LKQHMQSHSL ERSFTCYVDD CAASYRRKDH LNRHLLTHKG  120
KLFKCPKENC KSEFSVQGNV GRHVKKYHSN DNRDKDNTGL GDGDKDNTCK GDDDKEKSGS  180
GGCEKENEGN GGSGKDNNGN GDSQPAECST GQKQVVCKEI GCGKAFKYPS QLQKHQDSHV  240
KLDSVEAFCS EPGCMKYFTN EECLKSHIRS CHQHINCEIC GSKHLKKNIK RHLRTHDEDS  300
SPGEIKCEVE GCSSTFSKAS NLQKHMKAVH DDIRPFVCGF PGCGMRFAYK HVRNKHENSG  360
YHVYTCGDFV ETDEDFTSRP RGGLKRKQVT AEMLVRKRVM PPRFDAEEHE TC
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wjq_D3e-13183657284Zinc finger protein 568
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.668540.0flower
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453374370.0
Genevisible256344_at0.0
Expression AtlasAT1G72050-
AtGenExpressAT1G72050-
ATTED-IIAT1G72050-
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
TAIREncodes a transcriptional factor TFIIIA required for transcription of 5S rRNA gene. 5S rRNA is the smallest constituent of the ribosome. Work on one of the gene models AT1G72050.2 showed that it encodes a protein with nine Cys(2)-His(2)-type zinc fingers, a characteristic feature of TFIIIA proteins. AT1G72050.2 also contains a 23 amino acid spacer between fingers 1 and 2, a 66 amino acid spacer between fingers 4 and 5, and a 50 amino acid non-finger C-terminal tail. in vitro assay demonstrated that AT1g72050.2 binds to 5S rDNA and efficiently stimulates the transcription of 5S rRNA. AT1g72050.2 also binds to 5S rRNA in vitro. AT1g72050.2 is located at several nuclear foci including the nucleolus and is absent from the cytoplasm.
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}.
Function -- GeneRIF ? help Back to Top
  1. The authors show that Arabidopsis thaliana L5 and TFIIIA also bind potato spindle tuber viroid (+) RNA in vitro with the same affinity as they bind 5S rRNA, whereas the affinity for a chloroplastic viroid is significantly lower.
    [PMID: 21153748]
  2. Transcriptional and post-transcriptional control of TFIIIA transcripts as well as proteolytic cleavage of the TFIIIA protein regulate the quantities of 5S rRNA.
    [PMID: 22353599]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G72050.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Interaction ? help Back to Top
Source Intact With
IntActSearch Q84MZ4
Phenotype -- Disruption Phenotype ? help Back to Top
Source Description
UniProtDISRUPTION PHENOTYPE: Lethal. {ECO:0000269|PubMed:22353599}.
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G72050
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ6304780.0AJ630478.1 Arabidopsis thaliana mRNA for hypothetical protein, clone At1g72050D.
GenBankAY1866100.0AY186610.1 Arabidopsis thaliana transcription factor IIIA (TFIIIA) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001322779.10.0transcription factor IIIA
SwissprotQ84MZ40.0TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A1P8AV270.0A0A1P8AV27_ARATH; Transcription factor IIIA
STRINGAT1G72050.20.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47142852
Representative plantOGRP29811627
Publications ? help Back to Top
  1. Mathieu O, et al.
    Identification and characterization of transcription factor IIIA and ribosomal protein L5 from Arabidopsis thaliana.
    Nucleic Acids Res., 2003. 31(9): p. 2424-33
    [PMID:12711688]
  2. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  3. Gong W, et al.
    Genome-wide ORFeome cloning and analysis of Arabidopsis transcription factor genes.
    Plant Physiol., 2004. 135(2): p. 773-82
    [PMID:15208423]
  4. Englbrecht CC,Schoof H,B
    Conservation, diversification and expansion of C2H2 zinc finger proteins in the Arabidopsis thaliana genome.
    BMC Genomics, 2004. 5(1): p. 39
    [PMID:15236668]
  5. Sahr T,Voigt G,Paretzke HG,Schramel P,Ernst D
    Caesium-affected gene expression in Arabidopsis thaliana.
    New Phytol., 2005. 165(3): p. 747-54
    [PMID:15720685]
  6. Chung BY,Simons C,Firth AE,Brown CM,Hellens RP
    Effect of 5'UTR introns on gene expression in Arabidopsis thaliana.
    BMC Genomics, 2006. 7: p. 120
    [PMID:16712733]
  7. Xu J,Yang JY,Niu QW,Chua NH
    Arabidopsis DCP2, DCP1, and VARICOSE form a decapping complex required for postembryonic development.
    Plant Cell, 2006. 18(12): p. 3386-98
    [PMID:17158604]
  8. Fu Y, et al.
    Alternative splicing of anciently exonized 5S rRNA regulates plant transcription factor TFIIIA.
    Genome Res., 2009. 19(5): p. 913-21
    [PMID:19211543]
  9. Wuest SE, et al.
    Arabidopsis female gametophyte gene expression map reveals similarities between plant and animal gametes.
    Curr. Biol., 2010. 20(6): p. 506-12
    [PMID:20226671]
  10. Eiras M,Nohales MA,Kitajima EW,Flores R,Dar
    Ribosomal protein L5 and transcription factor IIIA from Arabidopsis thaliana bind in vitro specifically Potato spindle tuber viroid RNA.
    Arch. Virol., 2011. 156(3): p. 529-33
    [PMID:21153748]
  11. Arabidopsis Interactome Mapping Consortium
    Evidence for network evolution in an Arabidopsis interactome map.
    Science, 2011. 333(6042): p. 601-7
    [PMID:21798944]
  12. Klopffleisch K, et al.
    Arabidopsis G-protein interactome reveals connections to cell wall carbohydrates and morphogenesis.
    Mol. Syst. Biol., 2011. 7: p. 532
    [PMID:21952135]
  13. Layat E, et al.
    Transcript levels, alternative splicing and proteolytic cleavage of TFIIIA control 5S rRNA accumulation during Arabidopsis thaliana development.
    Plant J., 2012. 71(1): p. 35-44
    [PMID:22353599]
  14. Layat E,Probst AV,Tourmente S
    Structure, function and regulation of Transcription Factor IIIA: From Xenopus to Arabidopsis.
    Biochim. Biophys. Acta, 2013 Mar-Apr. 1829(3-4): p. 274-82
    [PMID:23142779]